Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 29 of 135
Found at i:11458593 original size:27 final size:26
Alignment explanation
Indices: 11458563--11458619 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 26
11458553 ACAATAAGTT
11458563 TTTATGAT-TTTTTTATAAATTTTAAAA
1 TTTAT-ATATTTTTT-TAAATTTTAAAA
*
11458590 TTTATATAATTTTTTTAAATTTTAACA
1 TTTATAT-ATTTTTTTAAATTTTAAAA
11458617 TTT
1 TTT
11458620 TTATGAGAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 2 0.07
27 19 0.70
28 6 0.22
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
TTTATATATTTTTTTAAATTTTAAAA
Found at i:11459247 original size:17 final size:18
Alignment explanation
Indices: 11459202--11459248 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
11459192 TATATAGGCA
11459202 ACATTTTTATTATTATTT
1 ACATTTTTATTATTATTT
11459220 ACATTAATTTATTA-TATATT
1 ACATT--TTTATTATTAT-TT
11459240 A-ATTTTTAT
1 ACATTTTTAT
11459249 GTTTTATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 5 0.19
18 5 0.19
19 6 0.23
20 10 0.38
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (18 bp):
ACATTTTTATTATTATTT
Found at i:11459832 original size:22 final size:20
Alignment explanation
Indices: 11459800--11459868 Score: 68
Period size: 22 Copynumber: 3.3 Consensus size: 20
11459790 TATGTTAAAA
*
11459800 ATATTTTAATTATGATTTGAAT
1 ATATTTGAATTAT-ATTT-AAT
* *
11459822 TTATTTGAATTGATAAATTAAT
1 ATATTTGAATT-AT-ATTTAAT
11459844 ATATTTGAATTATATTTAAT
1 ATATTTGAATTATATTTAAT
11459864 A-ATTT
1 ATATTT
11459869 AAATAGTAAG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
19 4 0.10
20 7 0.17
21 2 0.05
22 22 0.55
23 5 0.12
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (20 bp):
ATATTTGAATTATATTTAAT
Found at i:11466034 original size:14 final size:14
Alignment explanation
Indices: 11465966--11466046 Score: 68
Period size: 14 Copynumber: 6.3 Consensus size: 14
11465956 ACAGGTGTAG
*
11465966 TATTTATAACAGTA
1 TATTTATAACAATA
* * *
11465980 TA-TTAAAATAGTA
1 TATTTATAACAATA
11465993 TATTTATAACAATA
1 TATTTATAACAATA
11466007 TA---AT-ACAA-A
1 TATTTATAACAATA
11466016 T-TTTATAACAATA
1 TATTTATAACAATA
*
11466029 TATTTATAACAGTA
1 TATTTATAACAATA
11466043 TATT
1 TATT
11466047 AAAACAGTGG
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
9 2 0.04
10 4 0.07
11 4 0.07
12 4 0.07
13 13 0.24
14 27 0.50
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (14 bp):
TATTTATAACAATA
Found at i:11466575 original size:29 final size:29
Alignment explanation
Indices: 11466521--11466577 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
11466511 AAAACTTTAA
* * *
11466521 AATTATTTTTATTATTTGAAATATAAAAT
1 AATTATTTTTATTATATAAAAAATAAAAT
11466550 AATTATTTTTA-TATCATAAAAAATAAAA
1 AATTATTTTTATTAT-ATAAAAAATAAAA
11466578 GTAACTATAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (29 bp):
AATTATTTTTATTATATAAAAAATAAAAT
Found at i:11472744 original size:14 final size:14
Alignment explanation
Indices: 11472725--11472752 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11472715 AAGGGTTAAC
11472725 TATTAAGCAGTTAG
1 TATTAAGCAGTTAG
11472739 TATTAAGCAGTTAG
1 TATTAAGCAGTTAG
11472753 AAAGTTGTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
TATTAAGCAGTTAG
Found at i:11479307 original size:37 final size:40
Alignment explanation
Indices: 11479255--11479354 Score: 116
Period size: 41 Copynumber: 2.5 Consensus size: 40
11479245 AAGTAATAAT
* * *
11479255 TTGACACCTAGTGCCTCATCG-GTTAAACCG-A-AGTAAA
1 TTGACACCCAATGCCTCATCGAATTAAACCGAAGAGTAAA
* *
11479292 TTGACACTCAATGCCTCATCGAATTAATCCGAAGTAGTAAA
1 TTGACACCCAATGCCTCATCGAATTAAACCGAAG-AGTAAA
*
11479333 TTGACACCCAATGTCTCATCGA
1 TTGACACCCAATGCCTCATCGA
11479355 CTTGCAGTCG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
37 18 0.35
38 7 0.13
39 1 0.02
41 26 0.50
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (40 bp):
TTGACACCCAATGCCTCATCGAATTAAACCGAAGAGTAAA
Found at i:11480240 original size:4 final size:4
Alignment explanation
Indices: 11480233--11480289 Score: 64
Period size: 4 Copynumber: 14.0 Consensus size: 4
11480223 TTTCTCCTTC
*
11480233 CTTT CTTT CTTT -TTT CTTT -TTT TTTT CTTT CTTT CTATTT CGTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C--TTT C-TTT CTTT
11480282 CTTT CTTT
1 CTTT CTTT
11480290 TTATTTATTC
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
3 6 0.13
4 33 0.70
5 4 0.09
6 4 0.09
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.77
Consensus pattern (4 bp):
CTTT
Found at i:11480278 original size:19 final size:18
Alignment explanation
Indices: 11480234--11480287 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
11480224 TTCTCCTTCC
*
11480234 TTTCTTTCTTT-TTTCTTT
1 TTTCTTTCTTTCTTTC-TA
*
11480252 TTTTTTTCTTTCTTTCTA
1 TTTCTTTCTTTCTTTCTA
11480270 TTTCGTTTCTTTCTTTCT
1 TTTC-TTTCTTTCTTTCT
11480288 TTTTATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
18 14 0.45
19 17 0.55
ACGTcount: A:0.02, C:0.19, G:0.02, T:0.78
Consensus pattern (18 bp):
TTTCTTTCTTTCTTTCTA
Found at i:11480360 original size:20 final size:19
Alignment explanation
Indices: 11480330--11480385 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
11480320 TATTATAATA
11480330 TAATA-TAATATATATACT
1 TAATATTAATATATATACT
*
11480348 TAATACTTAATATATAATATT
1 TAATA-TTAATATAT-ATACT
11480369 TAATATTACA-ATATATA
1 TAATATTA-ATATATATA
11480386 TTTTAACTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
18 5 0.15
19 3 0.09
20 15 0.45
21 10 0.30
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
TAATATTAATATATATACT
Found at i:11493357 original size:2 final size:2
Alignment explanation
Indices: 11493350--11493376 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11493340 TAGTCCATTA
11493350 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11493377 AAATAATGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11495403 original size:20 final size:21
Alignment explanation
Indices: 11495368--11495410 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
11495358 TTTTTTATTC
11495368 ATCATTTTTCCAATAAAAAAA
1 ATCATTTTTCCAATAAAAAAA
* *
11495389 ATCATTTTTTC-ATAAAATAA
1 ATCATTTTTCCAATAAAAAAA
11495409 AT
1 AT
11495411 AAAAAAATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.40
Consensus pattern (21 bp):
ATCATTTTTCCAATAAAAAAA
Found at i:11500902 original size:17 final size:18
Alignment explanation
Indices: 11500872--11500905 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
11500862 TTTCAGATGA
*
11500872 GTTTTTCCATTAAAAAGT
1 GTTTTTCCACTAAAAAGT
11500890 GTTTTTCC-CTAAAAAG
1 GTTTTTCCACTAAAAAG
11500906 CAATGAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (18 bp):
GTTTTTCCACTAAAAAGT
Found at i:11521675 original size:21 final size:21
Alignment explanation
Indices: 11521637--11521676 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11521627 ATTATATATT
*
11521637 TTTAATTTTTAATTTTATTAA
1 TTTAATTTTTAATATTATTAA
11521658 TTTAATATTTT-ATATTATT
1 TTTAAT-TTTTAATATTATT
11521677 TTGGATAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTAATTTTTAATATTATTAA
Found at i:11525645 original size:29 final size:32
Alignment explanation
Indices: 11525603--11525666 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
11525593 TTAATCTCAC
* *
11525603 AAAAATTTCAATTAAAC-C-CAATTTTTTTAA
1 AAAAAATTCAATTAAACTCTAAATTTTTTTAA
11525633 AAAAAATTC-ATTAAACTTCTAAATTTTTTTAA
1 AAAAAATTCAATTAAAC-TCTAAATTTTTTTAA
11525665 AA
1 AA
11525667 TTTTACTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 7 0.24
30 8 0.28
31 1 0.03
32 13 0.45
ACGTcount: A:0.48, C:0.11, G:0.00, T:0.41
Consensus pattern (32 bp):
AAAAAATTCAATTAAACTCTAAATTTTTTTAA
Found at i:11530664 original size:96 final size:96
Alignment explanation
Indices: 11530484--11530709 Score: 260
Period size: 96 Copynumber: 2.3 Consensus size: 96
11530474 CGTGTTTATT
* * * *
11530484 GTTTTTTAAGAAAAAATTAATTAAATTAGGGTTTAAGGTTACTTAAGTAATTTAATTAAAAAAAT
1 GTTTTTTAAGAAAAAATCAAATAAATTAGGGTTCAAGGTTACTTAAGTAAATTAATTAAAAAAAT
11530549 TTTAAAAATCAAATTAGGGTTTAG-AGTTAAA
66 TTTAAAAATCAAATTAGGGTTTAGTA-TTAAA
* * * *
11530580 GTTTTTTAAGAAAAAATCAAATAAATTAGGGTTCATGGTTACTTGAGTAAATTAATT-ATAAATT
1 GTTTTTTAAGAAAAAATCAAATAAATTAGGGTTCAAGGTTACTTAAGTAAATTAATTAAAAAAAT
* * * *
11530644 TTTAATAAAT-TAGTTAAGGGTTTAGTATTTAG
66 TTTAA-AAATCAAATT-AGGGTTTAGTATTAAA
* * *
11530676 GGTTTTTAAGTAAAAACTCAAATAAATTAAGGTT
1 GTTTTTTAAG-AAAAAATCAAATAAATTAGGGTT
11530710 TGGGGTTTAA
Statistics
Matches: 111, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
95 13 0.12
96 76 0.68
97 22 0.20
ACGTcount: A:0.43, C:0.03, G:0.15, T:0.39
Consensus pattern (96 bp):
GTTTTTTAAGAAAAAATCAAATAAATTAGGGTTCAAGGTTACTTAAGTAAATTAATTAAAAAAAT
TTTAAAAATCAAATTAGGGTTTAGTATTAAA
Found at i:11530980 original size:126 final size:126
Alignment explanation
Indices: 11530750--11531050 Score: 449
Period size: 126 Copynumber: 2.4 Consensus size: 126
11530740 TTGTTAATTT
* *** *
11530750 AAAGAAGCTCCCACGTGGACGCGTTTTTGCTACAGTAGGTTCTGAAAAAATAATTTCGAGTAGAT
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAAATAATTTCGAGTAGAC
* * * * * *
11530815 GTTTTTGAGCAAATAGTGTCAAAAATGCTTTAAGAAGGATGCTTTGTCAGTAGAAGTACTG
66 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTATCAGCAGAAGTACTA
* *
11530876 AAAGAATCTCCCACGTGGACGCGCTTTTGCTACAGTATCCCCTGAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAAATAATTTCGAGTAGAC
*
11530941 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGCAGGATGCTTTATCAGCAGAAGTACTA
66 GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTATCAGCAGAAGTACTA
* **
11531002 AAAGAAGCTCCCACATGGACGCGCTTTTGCTACAGTAGCCTTTGAAAAA
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAA
11531051 GCTCCCGCGT
Statistics
Matches: 156, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 156 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.27
Consensus pattern (126 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCCCCTGAAAAAATAATTTCGAGTAGAC
GTTTCTGAGCAAACAGTGTCAAAAACGCTTTAAGAAGGATGCTTTATCAGCAGAAGTACTA
Found at i:11532647 original size:107 final size:107
Alignment explanation
Indices: 11532468--11532666 Score: 355
Period size: 107 Copynumber: 1.9 Consensus size: 107
11532458 GTTTTAAGAG
*
11532468 GATATTTGGCTATTTAGTCGAATGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
1 GATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
*
11532533 TTCCAAACGCTAAATATTGCCTTATTTTAAAAGTTTAAAAAT
66 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAT
*
11532575 GATATTTGGTTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGA-T
1 GATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
11532639 TTCTCAAACGCGAAATATTGCCTTATTT
66 TTC-CAAACGCGAAATATTGCCTTATTT
11532667 AGAAAAACTT
Statistics
Matches: 88, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
106 4 0.05
107 84 0.95
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (107 bp):
GATATTTGGCTATTTAGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAT
Found at i:11537811 original size:46 final size:46
Alignment explanation
Indices: 11537752--11537983 Score: 340
Period size: 46 Copynumber: 5.0 Consensus size: 46
11537742 CTATGGCAAA
* *
11537752 TTGTGAAAAGTAAGTATGGTGCTTCAGTGAAGAAAACCATACTGAC
1 TTGTGAAAAGTAAGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* * * *
11537798 TTGCGAAAAGTAAGTATGGTATTTC-GATAAAGAAAATCATACTGAG
1 TTGTGAAAAGTAAGTATGGTGTTTCAG-TGAAGAAAACCATACTGAG
*
11537844 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAAGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* *
11537890 TTGTGAAAAGTAGGTATGGTGTTTCAGTAAAGAAAACCATACTGAG
1 TTGTGAAAAGTAAGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* * *
11537936 TTGTGAAAAGTAAGTATGGTATTTCCGTGAAGAAAACCATATTGAG
1 TTGTGAAAAGTAAGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
11537982 TT
1 TT
11537984 ATAGCAATGT
Statistics
Matches: 167, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 165 0.99
47 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (46 bp):
TTGTGAAAAGTAAGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:11539833 original size:21 final size:21
Alignment explanation
Indices: 11539809--11539856 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
11539799 GCGGGAGTTG
*
11539809 TGGTTGCT-CTGGCGGGGATTC
1 TGGTTGCTCCTGGAGGGGA-TC
* *
11539830 TGGTTCCTCCTGTAGGGGATC
1 TGGTTGCTCCTGGAGGGGATC
11539851 TGGTTG
1 TGGTTG
11539857 TCGGTGTTGG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.06, C:0.19, G:0.40, T:0.35
Consensus pattern (21 bp):
TGGTTGCTCCTGGAGGGGATC
Found at i:11541999 original size:11 final size:11
Alignment explanation
Indices: 11541985--11542030 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
11541975 TTTAAATAGG
*
11541985 AATTTAAGAGA
1 AATTTGAGAGA
*
11541996 AATTTGAGAGG
1 AATTTGAGAGA
11542007 AATTTGAGAGA
1 AATTTGAGAGA
*
11542018 ATATTAGAGAGA
1 A-ATTTGAGAGA
11542030 A
1 A
11542031 TATTAGAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
11 20 0.67
12 10 0.33
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (11 bp):
AATTTGAGAGA
Found at i:11542007 original size:22 final size:21
Alignment explanation
Indices: 11541982--11542041 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 21
11541972 TCTTTTAAAT
*
11541982 AGGAATTTAAGAGAAATTTGAG
1 AGGAATTT-AGAGAAATTAGAG
11542004 AGGAATTTGAGAGAATATTAGAG
1 AGGAATTT-AGAGAA-ATTAGAG
11542027 A-GAATATTAGAGAAA
1 AGGAAT-TTAGAGAAA
11542042 GGGTTTAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 1 0.03
22 24 0.71
23 9 0.26
ACGTcount: A:0.48, C:0.00, G:0.27, T:0.25
Consensus pattern (21 bp):
AGGAATTTAGAGAAATTAGAG
Found at i:11542029 original size:12 final size:12
Alignment explanation
Indices: 11541991--11542039 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
11541981 TAGGAATTTA
*
11541991 AGAGAA-ATTTG
1 AGAGAATATTAG
11542002 AGAGGAAT-TT-G
1 AGA-GAATATTAG
11542013 AGAGAATATTAG
1 AGAGAATATTAG
11542025 AGAGAATATTAG
1 AGAGAATATTAG
11542037 AGA
1 AGA
11542040 AAGGGTTTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
10 4 0.12
11 9 0.26
12 21 0.62
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (12 bp):
AGAGAATATTAG
Found at i:11578287 original size:3 final size:3
Alignment explanation
Indices: 11578279--11578307 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11578269 ATTGGGTTGA
11578279 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
11578308 ACATCTGCGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:11596884 original size:132 final size:133
Alignment explanation
Indices: 11596647--11596911 Score: 523
Period size: 132 Copynumber: 2.0 Consensus size: 133
11596637 AACAGTAAAA
11596647 TAGGGGAAACTTTAAAGAATAAACTGTACTTATTGGCTAAACCAAAAATTCTGAAAATTTTATGG
1 TAGGGGAAACTTTAAAGAATAAACTGTACTTATTGGCTAAACCAAAAATTCTGAAAATTTTATGG
11596712 TAAGAAGATATGTGAGTCTAGTTTCGGGGAAAATTAACAGATCTTAATTT-GAGTTTCGTAGCTC
66 TAAGAAGATATGTGAGTCTAGTTTCGGGGAAAATTAACAGATCTTAATTTGGAGTTTCGTAGCTC
11596776 AAG
131 AAG
11596779 TAGGGGAAACTTTAAAGAATAAACTGTACTTATTGGCTAAACCAAAAATTCTGAAAATTTTATGG
1 TAGGGGAAACTTTAAAGAATAAACTGTACTTATTGGCTAAACCAAAAATTCTGAAAATTTTATGG
11596844 TAAGAAGATATGTGAGTCTAGTTTCGGGGAAAATTAACAGATCTTAATTTGGAGTTTCGTAGCTC
66 TAAGAAGATATGTGAGTCTAGTTTCGGGGAAAATTAACAGATCTTAATTTGGAGTTTCGTAGCTC
11596909 AAG
131 AAG
11596912 ATATAAATAA
Statistics
Matches: 132, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
132 115 0.87
133 17 0.13
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (133 bp):
TAGGGGAAACTTTAAAGAATAAACTGTACTTATTGGCTAAACCAAAAATTCTGAAAATTTTATGG
TAAGAAGATATGTGAGTCTAGTTTCGGGGAAAATTAACAGATCTTAATTTGGAGTTTCGTAGCTC
AAG
Found at i:11603313 original size:5 final size:5
Alignment explanation
Indices: 11603245--11603297 Score: 99
Period size: 5 Copynumber: 10.8 Consensus size: 5
11603235 CAGTATTAAG
11603245 TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
11603294 TATA
1 TATA
11603298 GTAAAACAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 4 0.08
5 44 0.92
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:11603391 original size:17 final size:18
Alignment explanation
Indices: 11603348--11603391 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
11603338 ATAAATGAAA
*
11603348 GAAAAAGAAATAGAAAGT
1 GAAAAAGAAATAGAAAGG
*
11603366 G-AAACGAAATAG-AAGG
1 GAAAAAGAAATAGAAAGG
11603382 GAAAAAGAAA
1 GAAAAAGAAA
11603392 GAAAAAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 4 0.18
17 17 0.77
18 1 0.05
ACGTcount: A:0.66, C:0.02, G:0.25, T:0.07
Consensus pattern (18 bp):
GAAAAAGAAATAGAAAGG
Found at i:11603402 original size:14 final size:14
Alignment explanation
Indices: 11603383--11603410 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11603373 AATAGAAGGG
11603383 AAAAAGAAAGAAAA
1 AAAAAGAAAGAAAA
11603397 AAAAAGAAAGAAAA
1 AAAAAGAAAGAAAA
11603411 GGAGAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAGAAAA
Found at i:11604098 original size:24 final size:23
Alignment explanation
Indices: 11604066--11604112 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
11604056 TTTGTAATTG
11604066 AAATGTATTG-ATTTAGTATGTGAT
1 AAATGTATTGAATTTA-TAT-TGAT
*
11604090 AAATTTATTGAATTTATATTGAT
1 AAATGTATTGAATTTATATTGAT
11604113 TGAATTGGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
24 12 0.57
25 5 0.24
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (23 bp):
AAATGTATTGAATTTATATTGAT
Found at i:11616304 original size:16 final size:17
Alignment explanation
Indices: 11616283--11616315 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
11616273 GTGATTTATA
11616283 AAATTTTATAA-ATATT
1 AAATTTTATAATATATT
11616299 AAATTTTATAATATATT
1 AAATTTTATAATATATT
11616316 TTTAATTNNN
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AAATTTTATAATATATT
Found at i:11618741 original size:39 final size:40
Alignment explanation
Indices: 11618686--11618766 Score: 155
Period size: 39 Copynumber: 2.0 Consensus size: 40
11618676 CAATTATGTA
11618686 GAACAGCAGCCGTCTTTCTTCACAGCTGAAACATCATCCC
1 GAACAGCAGCCGTCTTTCTTCACAGCTGAAACATCATCCC
11618726 GAACAGC-GCCGTCTTTCTTCACAGCTGAAACATCATCCC
1 GAACAGCAGCCGTCTTTCTTCACAGCTGAAACATCATCCC
11618765 GA
1 GA
11618767 GAGCCGACAT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
39 34 0.83
40 7 0.17
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.22
Consensus pattern (40 bp):
GAACAGCAGCCGTCTTTCTTCACAGCTGAAACATCATCCC
Found at i:11633730 original size:27 final size:27
Alignment explanation
Indices: 11633673--11633731 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
11633663 CAAATATTAT
* * * *
11633673 AAAAACTTCAAGAGACTCTACAATGCT
1 AAAAACTTCAAGAGACACAAAAATGCA
11633700 AAAAACTTCAAGAGACACAAAAATAG-A
1 AAAAACTTCAAGAGACACAAAAAT-GCA
11633727 AAAAA
1 AAAAA
11633732 TTAAAAGAGC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.58, C:0.17, G:0.10, T:0.15
Consensus pattern (27 bp):
AAAAACTTCAAGAGACACAAAAATGCA
Found at i:11644478 original size:41 final size:40
Alignment explanation
Indices: 11644397--11644486 Score: 108
Period size: 42 Copynumber: 2.2 Consensus size: 40
11644387 AAATAATATT
* ** * *
11644397 AAAATAATCAAAACAACATGCCAAATAAATTTCTTAAAAA
1 AAAAAAATCAAAACAACATAACAAATAAATTACATAAAAA
11644437 AAAAAAATCTAAAACACACATAACAAATAAATTACATAAAAA
1 AAAAAAATC-AAAACA-ACATAACAAATAAATTACATAAAAA
*
11644479 AATAAAAT
1 AAAAAAAT
11644487 ATTCTTTGTA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 8 0.19
41 6 0.14
42 28 0.67
ACGTcount: A:0.66, C:0.13, G:0.01, T:0.20
Consensus pattern (40 bp):
AAAAAAATCAAAACAACATAACAAATAAATTACATAAAAA
Found at i:11645811 original size:16 final size:17
Alignment explanation
Indices: 11645790--11645827 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
11645780 TTCTATATTG
*
11645790 ATTTTACT-TTTATTTT
1 ATTTTACTATGTATTTT
11645806 ATTTTACTACTGTATTTT
1 ATTTTACTA-TGTATTTT
11645824 ATTT
1 ATTT
11645828 AAATAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTACTATGTATTTT
Found at i:11648524 original size:22 final size:22
Alignment explanation
Indices: 11648496--11648558 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
11648486 ACTAATGAAT
* *
11648496 AGAGAGCATTGAAGTGCTATAC
1 AGAGAGCACTGAAGTGCTAAAC
* *
11648518 AGAGAGCACAGATGTGCTAAAC
1 AGAGAGCACTGAAGTGCTAAAC
* *
11648540 GGAGAGCACTGACGTGCTA
1 AGAGAGCACTGAAGTGCTA
11648559 GTAATCAAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.35, C:0.17, G:0.30, T:0.17
Consensus pattern (22 bp):
AGAGAGCACTGAAGTGCTAAAC
Found at i:11648572 original size:25 final size:25
Alignment explanation
Indices: 11648542--11648596 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
11648532 TGCTAAACGG
**
11648542 AGAGCACTGACGTGCTAGTAATCAA
1 AGAGCACCAACGTGCTAGTAATCAA
*
11648567 AGAGCACCAACGTGCTAGTAATCAG
1 AGAGCACCAACGTGCTAGTAATCAA
11648592 AGAGC
1 AGAGC
11648597 GCGCTAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.16
Consensus pattern (25 bp):
AGAGCACCAACGTGCTAGTAATCAA
Found at i:11682100 original size:15 final size:15
Alignment explanation
Indices: 11682080--11682109 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11682070 AGAATTTTCA
11682080 ATAATTTTTAAAAAT
1 ATAATTTTTAAAAAT
11682095 ATAATTTTTAAAAAT
1 ATAATTTTTAAAAAT
11682110 TTTGTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATTTTTAAAAAT
Found at i:11683223 original size:15 final size:15
Alignment explanation
Indices: 11683203--11683232 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11683193 AGAATTTTCA
11683203 ATAATTTTTAAAAAT
1 ATAATTTTTAAAAAT
11683218 ATAATTTTTAAAAAT
1 ATAATTTTTAAAAAT
11683233 TTTGTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATTTTTAAAAAT
Found at i:11686754 original size:25 final size:26
Alignment explanation
Indices: 11686713--11686761 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
11686703 CTCCATTTAG
* *
11686713 AAAAAAAAAGGTGAAAACAAACCCAA
1 AAAAAAAAAGGTAAAAAAAAACCCAA
11686739 AAAAAAAAAGG-AAAAAAAAACCC
1 AAAAAAAAAGGTAAAAAAAAACCC
11686762 CCCCCCCCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.73, C:0.14, G:0.10, T:0.02
Consensus pattern (26 bp):
AAAAAAAAAGGTAAAAAAAAACCCAA
Found at i:11689445 original size:27 final size:27
Alignment explanation
Indices: 11689404--11689482 Score: 140
Period size: 27 Copynumber: 2.9 Consensus size: 27
11689394 TAGTATTGGC
* *
11689404 GCCTATCTGGAAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
11689431 GCCTATTTGGGAGGCGCCAATGGTGGT
1 GCCTATTTGGGAGGCGCCAATGGTGGT
11689458 GCCTATTTGGGAGGCGCCAATGGTG
1 GCCTATTTGGGAGGCGCCAATGGTG
11689483 AACAAAATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.16, C:0.20, G:0.39, T:0.24
Consensus pattern (27 bp):
GCCTATTTGGGAGGCGCCAATGGTGGT
Found at i:11689618 original size:27 final size:27
Alignment explanation
Indices: 11689582--11689687 Score: 150
Period size: 27 Copynumber: 4.1 Consensus size: 27
11689572 ATATCCCCAC
11689582 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
11689609 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
* *
11689631 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
*
11689658 ATTACAATATTCATACAACATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
11689685 ATT
1 ATT
11689688 CATAAAAAAA
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
22 15 0.21
23 5 0.07
24 1 0.01
25 1 0.01
26 5 0.07
27 43 0.61
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.34
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:11689659 original size:49 final size:49
Alignment explanation
Indices: 11689582--11689745 Score: 195
Period size: 49 Copynumber: 3.6 Consensus size: 49
11689572 ATATCCCCAC
*
11689582 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAA
* *
11689631 ATTGCAATATTCATACAAAATTATAATATTACAATATTCATAC---AAC
1 ATTACAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAA
*
11689677 ATTACAATATTCAT---AAA--A-AA-ATTATAATATTCATACAAAAAA
1 ATTACAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAA
* * *
11689719 TTTAAAATATTCATACAAAATTCTAAT
1 ATTACAATATTCATACAAAATTATAAT
11689746 CTAAACTATA
Statistics
Matches: 96, Mismatches: 9, Indels: 20
0.77 0.07 0.16
Matches are distributed among these distances:
39 15 0.16
40 2 0.02
41 1 0.01
42 14 0.15
43 3 0.03
45 3 0.03
46 15 0.16
48 2 0.02
49 41 0.43
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (49 bp):
ATTACAATATTCATACAAAATTATAATATTACAATATTCATACAAAAAA
Found at i:11689705 original size:20 final size:21
Alignment explanation
Indices: 11689582--11689738 Score: 90
Period size: 19 Copynumber: 7.0 Consensus size: 21
11689572 ATATCCCCAC
11689582 ATTACAATATTCATAC--AAA
1 ATTACAATATTCATACAAAAA
11689601 ATTACAATATTACAATATTCATACAAAA
1 ATTACAATATT-C-ATA--C--A-AAAA
*
11689629 AAATTGCAATATTCATAC--AAA
1 --ATTACAATATTCATACAAAAA
* *
11689650 ATTATAATATTACAATATTCATACAAC
1 ATTACAATATT-C-ATA--CA-A-AAA
11689677 ATTACAATATTCATA-AAAAA
1 ATTACAATATTCATACAAAAA
*
11689697 ATTATAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAA
*
11689718 ATTTAAAATATTCATACAAAA
1 A-TTACAATATTCATACAAAA
11689739 TTCTAATCTA
Statistics
Matches: 109, Mismatches: 8, Indels: 39
0.70 0.05 0.25
Matches are distributed among these distances:
19 20 0.18
20 18 0.17
21 16 0.15
22 19 0.17
23 2 0.02
25 3 0.03
26 2 0.02
27 12 0.11
28 6 0.06
29 1 0.01
30 10 0.09
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (21 bp):
ATTACAATATTCATACAAAAA
Found at i:11689740 original size:20 final size:20
Alignment explanation
Indices: 11689663--11689740 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
11689653 ATAATATTAC
* *
11689663 AATATTCATACAACA-TTAC
1 AATATTCATACAAAATTTAA
* * *
11689682 AATATTCATAAAAAAATTAT
1 AATATTCATACAAAATTTAA
11689702 AATATTCATACAAAAAATTTAA
1 AATATTCATAC--AAAATTTAA
11689724 AATATTCATACAAAATT
1 AATATTCATACAAAATT
11689741 CTAATCTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 13 0.26
20 19 0.38
22 18 0.36
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (20 bp):
AATATTCATACAAAATTTAA
Found at i:11690034 original size:15 final size:16
Alignment explanation
Indices: 11690004--11690036 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
11689994 TAAAAAAATA
11690004 TAAAATTATATTTTAT
1 TAAAATTATATTTTAT
*
11690020 TAAAATT-TTTTTTAT
1 TAAAATTATATTTTAT
11690035 TA
1 TA
11690037 TTATTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TAAAATTATATTTTAT
Found at i:11694285 original size:19 final size:19
Alignment explanation
Indices: 11694243--11694285 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
11694233 TAATAAAATC
* *
11694243 ATTTT-TAATTATTTATTA
1 ATTTTATAAATATTTAATA
*
11694261 ACTTTATAAATATTTAATA
1 ATTTTATAAATATTTAATA
11694280 ATTTTA
1 ATTTTA
11694286 ATTTCTCATT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTTATAAATATTTAATA
Found at i:11697124 original size:475 final size:475
Alignment explanation
Indices: 11696230--11697183 Score: 1901
Period size: 475 Copynumber: 2.0 Consensus size: 475
11696220 CAAATTCCAC
11696230 TTTA-TACTAAATTTAAATCTCTATTTTCACTTAAATCCCTAAATTTTGAATTTTTTACAATTTA
1 TTTACTACTAAATTTAAATCTCTATTTTCACTTAAATCCCTAAATTTTGAATTTTTTACAATTTA
11696294 TCCCCTATTACTCAAAATTTACAATTTATTCTACAATTCAATCTTTTTTTGTTTCTAGCTTAAAA
66 TCCCCTATTACTCAAAATTTACAATTTATTCTACAATTCAATCTTTTTTTGTTTCTAGCTTAAAA
11696359 ATCTATCAATTTAATCCCTAATACTAAAATTATTCAACATTAACAATATCTAAAACCTCAATAAT
131 ATCTATCAATTTAATCCCTAATACTAAAATTATTCAACATTAACAATATCTAAAACCTCAATAAT
11696424 TTCTAAAATTTGGACATGGGTCAGGTAGTATTTAATACCGGGATTCCAAAAACATAAAATTTAAT
196 TTCTAAAATTTGGACATGGGTCAGGTAGTATTTAATACCGGGATTCCAAAAACATAAAATTTAAT
11696489 TCAAGCAAATTCACTTAACCGAAAACTAATTAACTACACAACTAGCTTCGTAAATATTTTTAAAT
261 TCAAGCAAATTCACTTAACCGAAAACTAATTAACTACACAACTAGCTTCGTAAATATTTTTAAAT
11696554 ATTTACGAGTTCGATTAATGGGAACGGAGTCCCGGGAATGCATTTTTTTTAATTTGGTCCTTTTT
326 ATTTACGAGTTCGATTAATGGGAACGGAGTCCCGGGAATGCATTTTTTTTAATTTGGTCCTTTTT
11696619 AATTAATTAACTATCGAAACATTAAAATTTCTTAACGAAACTTTAATTTGACCTAAATAACACTC
391 AATTAATTAACTATCGAAACATTAAAATTTCTTAACGAAACTTTAATTTGACCTAAATAACACTC
11696684 TGTAAATATTTATAAAAATA
456 TGTAAATATTTATAAAAATA
11696704 TTTACTACTAAATTTAAATCTCTATTTTCACTTAAATCCCTAAATTTTGAATTTTTTACAATTTA
1 TTTACTACTAAATTTAAATCTCTATTTTCACTTAAATCCCTAAATTTTGAATTTTTTACAATTTA
11696769 TCCCCTATTACTCAAAATTTACAATTTATTCTACAATTCAATCTTTTTTTGTTTCTAGCTTAAAA
66 TCCCCTATTACTCAAAATTTACAATTTATTCTACAATTCAATCTTTTTTTGTTTCTAGCTTAAAA
11696834 ATCTATCAATTTAATCCCTAATACTAAAATTATTCAACATTAACAATATCTAAAACCTCAATAAT
131 ATCTATCAATTTAATCCCTAATACTAAAATTATTCAACATTAACAATATCTAAAACCTCAATAAT
11696899 TTCTAAAATTTGGACATGGGTCAGGTAGTATTTAATACCGGGATTCCAAAAACATAAAATTTAAT
196 TTCTAAAATTTGGACATGGGTCAGGTAGTATTTAATACCGGGATTCCAAAAACATAAAATTTAAT
11696964 TCAAGCAAATTCACTTAACCGAAAACTAATTAACTACACAACTAGCTTCGTAAATATTTTTAAAT
261 TCAAGCAAATTCACTTAACCGAAAACTAATTAACTACACAACTAGCTTCGTAAATATTTTTAAAT
11697029 ATTTACGAGTTCGATTAATGGGAACGGAGTCCCGGGAATGCATTTTTTTTAATTTGGTCCTTTTT
326 ATTTACGAGTTCGATTAATGGGAACGGAGTCCCGGGAATGCATTTTTTTTAATTTGGTCCTTTTT
11697094 AATTAATTAACTATCGAAACATTAAAATTTCTTAACGAAACTTTAATTTGACCTAAATAACACTC
391 AATTAATTAACTATCGAAACATTAAAATTTCTTAACGAAACTTTAATTTGACCTAAATAACACTC
11697159 TGTAAATATTTATAAAAATA
456 TGTAAATATTTATAAAAATA
11697179 TTTAC
1 TTTAC
11697184 GACTCATTTT
Statistics
Matches: 479, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
474 4 0.01
475 475 0.99
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.38
Consensus pattern (475 bp):
TTTACTACTAAATTTAAATCTCTATTTTCACTTAAATCCCTAAATTTTGAATTTTTTACAATTTA
TCCCCTATTACTCAAAATTTACAATTTATTCTACAATTCAATCTTTTTTTGTTTCTAGCTTAAAA
ATCTATCAATTTAATCCCTAATACTAAAATTATTCAACATTAACAATATCTAAAACCTCAATAAT
TTCTAAAATTTGGACATGGGTCAGGTAGTATTTAATACCGGGATTCCAAAAACATAAAATTTAAT
TCAAGCAAATTCACTTAACCGAAAACTAATTAACTACACAACTAGCTTCGTAAATATTTTTAAAT
ATTTACGAGTTCGATTAATGGGAACGGAGTCCCGGGAATGCATTTTTTTTAATTTGGTCCTTTTT
AATTAATTAACTATCGAAACATTAAAATTTCTTAACGAAACTTTAATTTGACCTAAATAACACTC
TGTAAATATTTATAAAAATA
Found at i:11698896 original size:159 final size:160
Alignment explanation
Indices: 11698702--11699022 Score: 635
Period size: 159 Copynumber: 2.0 Consensus size: 160
11698692 CAACTTATTG
11698702 TAAAAATAATAATTATAATTATAATTATAAAAAATCACTTTTAATGATTTTTAGAGTGTCTTTCT
1 TAAAAATAATAATTATAATTATAATTATAAAAAATCACTTTTAATGATTTTTAGAGTGTCTTTCT
11698767 ATTGATTTTTTTTAAAGGAGTTGAATTTTTTTTTTAATTTTACTGTAACGAAAAAATAACGGGAA
66 ATTGATTTTTTTTAAAGGAGTTGAATTTTTTTTTTAATTTTACTGTAACGAAAAAATAACGGGAA
11698832 TAGCGGTCCGTTATTATCGCAATCGGCCGT
131 TAGCGGTCCGTTATTATCGCAATCGGCCGT
11698862 TAAAAATAAT-ATTATAATTATAATTATAAAAAATCACTTTTAATGATTTTTAGAGTGTCTTTCT
1 TAAAAATAATAATTATAATTATAATTATAAAAAATCACTTTTAATGATTTTTAGAGTGTCTTTCT
11698926 ATTGATTTTTTTTAAAGGAGTTGAATTTTTTTTTTAATTTTACTGTAACGAAAAAATAACGGGAA
66 ATTGATTTTTTTTAAAGGAGTTGAATTTTTTTTTTAATTTTACTGTAACGAAAAAATAACGGGAA
11698991 TAGCGGTCCGTTATTATCGCAATCGGCCGT
131 TAGCGGTCCGTTATTATCGCAATCGGCCGT
11699021 TA
1 TA
11699023 CCCGTTAAAT
Statistics
Matches: 161, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
159 151 0.94
160 10 0.06
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (160 bp):
TAAAAATAATAATTATAATTATAATTATAAAAAATCACTTTTAATGATTTTTAGAGTGTCTTTCT
ATTGATTTTTTTTAAAGGAGTTGAATTTTTTTTTTAATTTTACTGTAACGAAAAAATAACGGGAA
TAGCGGTCCGTTATTATCGCAATCGGCCGT
Found at i:11706521 original size:19 final size:20
Alignment explanation
Indices: 11706497--11706537 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
11706487 TCTGGTGCAG
11706497 TAAAAT-ATTTTCAATTTTT
1 TAAAATAATTTTCAATTTTT
11706516 TAAAATAAATTTTCAATTTTT
1 TAAAAT-AATTTTCAATTTTT
11706537 T
1 T
11706538 CTTAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 6 0.30
21 14 0.70
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (20 bp):
TAAAATAATTTTCAATTTTT
Found at i:11707650 original size:47 final size:47
Alignment explanation
Indices: 11707598--11707739 Score: 115
Period size: 47 Copynumber: 3.1 Consensus size: 47
11707588 TAATTTTATA
11707598 AATTATAGATGAAGTGCCTAACTTTGCCAAGAGTTAAAATACAATAT
1 AATTATAGATGAAGTGCCTAACTTTGCCAAGAGTTAAAATACAATAT
* * *** * *
11707645 AATTAT--CT-TA-T---T-ACTTTTAGAA-A-TCAAAATATAATTTTAT
1 AATTATAGATGAAGTGCCTAACTTTGCCAAGAGTTAAAATACAA---TAT
11707685 AAATTATAGATGAAGTGCCTAACTTTGCCAAGAGTTAAAATACAATAT
1 -AATTATAGATGAAGTGCCTAACTTTGCCAAGAGTTAAAATACAATAT
11707733 AATTATA
1 AATTATA
11707740 CTACAAACTC
Statistics
Matches: 67, Mismatches: 14, Indels: 28
0.61 0.13 0.26
Matches are distributed among these distances:
37 9 0.13
38 1 0.01
39 7 0.10
40 4 0.06
41 6 0.09
43 2 0.03
44 2 0.03
45 2 0.03
47 13 0.19
48 4 0.06
49 7 0.10
50 1 0.01
51 9 0.13
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.35
Consensus pattern (47 bp):
AATTATAGATGAAGTGCCTAACTTTGCCAAGAGTTAAAATACAATAT
Found at i:11707664 original size:88 final size:89
Alignment explanation
Indices: 11707560--11707738 Score: 351
Period size: 88 Copynumber: 2.0 Consensus size: 89
11707550 ATTAAATTAA
11707560 ATCTTATTACTTTTTAGAAATCAAAATATAATTTTATAAATTATAGATGAAGTGCCTAACTTTGC
1 ATCTTATTACTTTTTAGAAATCAAAATATAATTTTATAAATTATAGATGAAGTGCCTAACTTTGC
11707625 CAAGAGTTAAAATACAATATAATT
66 CAAGAGTTAAAATACAATATAATT
11707649 ATCTTATTAC-TTTTAGAAATCAAAATATAATTTTATAAATTATAGATGAAGTGCCTAACTTTGC
1 ATCTTATTACTTTTTAGAAATCAAAATATAATTTTATAAATTATAGATGAAGTGCCTAACTTTGC
11707713 CAAGAGTTAAAATACAATATAATT
66 CAAGAGTTAAAATACAATATAATT
11707737 AT
1 AT
11707739 ACTACAAACT
Statistics
Matches: 90, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
88 80 0.89
89 10 0.11
ACGTcount: A:0.43, C:0.10, G:0.09, T:0.38
Consensus pattern (89 bp):
ATCTTATTACTTTTTAGAAATCAAAATATAATTTTATAAATTATAGATGAAGTGCCTAACTTTGC
CAAGAGTTAAAATACAATATAATT
Found at i:11719892 original size:12 final size:12
Alignment explanation
Indices: 11719875--11719899 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11719865 TAAAAAGTGC
11719875 GATATTAGATAA
1 GATATTAGATAA
11719887 GATATTAGATAA
1 GATATTAGATAA
11719899 G
1 G
11719900 TTTGAACTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (12 bp):
GATATTAGATAA
Found at i:11720349 original size:1 final size:1
Alignment explanation
Indices: 11720343--11720368 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
11720333 CCACATTCAC
11720343 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
11720369 GGGAGATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:11722363 original size:4 final size:4
Alignment explanation
Indices: 11722354--11722387 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
11722344 AATAAAATAA
11722354 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
11722388 CTTGGATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:11725384 original size:2 final size:2
Alignment explanation
Indices: 11725379--11725411 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
11725369 GAGAGACACA
11725379 AG AG AG ATG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG A-G AG AG AG AG AG AG AG AG AG AG AG AG
11725412 TTACAGCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (2 bp):
AG
Found at i:11727319 original size:1 final size:1
Alignment explanation
Indices: 11727313--11727356 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
11727303 TTAGAGAGTT
* * * *
11727313 GGGGGGGGGGGGGGGAGTGTGGGGAGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
11727357 TTAACCACAC
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:0.05, C:0.00, G:0.91, T:0.05
Consensus pattern (1 bp):
G
Found at i:11730280 original size:21 final size:23
Alignment explanation
Indices: 11730240--11730281 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
11730230 TCATTCTTGT
11730240 TAAACATTTAGAACAAATAAATC
1 TAAACATTTAGAACAAATAAATC
*
11730263 TAAAC-TTTA-AACACATAAA
1 TAAACATTTAGAACAAATAAA
11730282 GATGTTCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 4 0.22
23 5 0.28
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.26
Consensus pattern (23 bp):
TAAACATTTAGAACAAATAAATC
Found at i:11730885 original size:17 final size:18
Alignment explanation
Indices: 11730842--11730885 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 18
11730832 GAGAATTATT
11730842 TTATTTTTATATGAAATAA
1 TTATTTTTATA-GAAATAA
11730861 TT-TGTTTTATA-AAATAA
1 TTAT-TTTTATAGAAATAA
11730878 TTATTTTT
1 TTATTTTT
11730886 CGAAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 12 0.52
18 2 0.09
19 9 0.39
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
TTATTTTTATAGAAATAA
Found at i:11731297 original size:3 final size:3
Alignment explanation
Indices: 11731289--11731323 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11731279 AGTGATATAT
11731289 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11731324 TTGGTATGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11731414 original size:3 final size:3
Alignment explanation
Indices: 11731406--11731440 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
11731396 AGTGATATAT
11731406 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
11731441 TTGGTATGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:11731416 original size:117 final size:119
Alignment explanation
Indices: 11731266--11731501 Score: 458
Period size: 117 Copynumber: 2.0 Consensus size: 119
11731256 ATTGGATTTA
11731266 TATAAGTAGAATTAGTGATATATATAATAATAATAATAATAATAATAATAATAATAATTTGGTAT
1 TATAAGTAGAATTAGTGATATATATAATAATAATAATAATAATAATAATAATAATAATTTGGTAT
11731331 GCTATAGTGATGGTTTTAGACTTCAAAATCAGATACATATCTATAGTAAAAATT
66 GCTATAGTGATGGTTTTAGACTTCAAAATCAGATACATATCTATAGTAAAAATT
11731385 TATAAGTAG-A-TAGTGATATATATAATAATAATAATAATAATAATAATAATAATAATTTGGTAT
1 TATAAGTAGAATTAGTGATATATATAATAATAATAATAATAATAATAATAATAATAATTTGGTAT
11731448 GCTATAGTGATGGTTTTAGACTTCAAAATCAGATACATATCTATAGTAAAAATT
66 GCTATAGTGATGGTTTTAGACTTCAAAATCAGATACATATCTATAGTAAAAATT
11731502 AAAAATTTGA
Statistics
Matches: 117, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
117 107 0.91
118 1 0.01
119 9 0.08
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (119 bp):
TATAAGTAGAATTAGTGATATATATAATAATAATAATAATAATAATAATAATAATAATTTGGTAT
GCTATAGTGATGGTTTTAGACTTCAAAATCAGATACATATCTATAGTAAAAATT
Found at i:11752066 original size:93 final size:93
Alignment explanation
Indices: 11751969--11752154 Score: 372
Period size: 93 Copynumber: 2.0 Consensus size: 93
11751959 CACAAGTCCA
11751969 CGATTAAGATCTAAAACTGTGAAATTTTCAACAGAAGGGAAAAAACTGCAAAAGAGCAAATACCC
1 CGATTAAGATCTAAAACTGTGAAATTTTCAACAGAAGGGAAAAAACTGCAAAAGAGCAAATACCC
11752034 AGAAAAAAAATGAAGGAAACTGGGATAG
66 AGAAAAAAAATGAAGGAAACTGGGATAG
11752062 CGATTAAGATCTAAAACTGTGAAATTTTCAACAGAAGGGAAAAAACTGCAAAAGAGCAAATACCC
1 CGATTAAGATCTAAAACTGTGAAATTTTCAACAGAAGGGAAAAAACTGCAAAAGAGCAAATACCC
11752127 AGAAAAAAAATGAAGGAAACTGGGATAG
66 AGAAAAAAAATGAAGGAAACTGGGATAG
11752155 GAAATCTATA
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 93 1.00
ACGTcount: A:0.51, C:0.13, G:0.20, T:0.16
Consensus pattern (93 bp):
CGATTAAGATCTAAAACTGTGAAATTTTCAACAGAAGGGAAAAAACTGCAAAAGAGCAAATACCC
AGAAAAAAAATGAAGGAAACTGGGATAG
Found at i:11760137 original size:24 final size:24
Alignment explanation
Indices: 11760108--11760158 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
11760098 AAAAAGCCTA
11760108 TAACGGGTAGCTCTAAAGAGCAAT
1 TAACGGGTAGCTCTAAAGAGCAAT
*
11760132 TAACGGGTAGCTCTGAAGAGCAAT
1 TAACGGGTAGCTCTAAAGAGCAAT
11760156 TAA
1 TAA
11760159 TGGGAAGCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (24 bp):
TAACGGGTAGCTCTAAAGAGCAAT
Found at i:11760269 original size:26 final size:26
Alignment explanation
Indices: 11760208--11760263 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
11760198 GAGCACTAAC
* *
11760208 GGGAAGCTTACAAAGAGCCTTTAATT
1 GGGAAGCTCACAAAGAGCCTATAATT
11760234 GGGAAGCTCACAAAGAGCCATATAA-T
1 GGGAAGCTCACAAAGAGCC-TATAATT
11760260 GGGA
1 GGGA
11760264 CACTCATAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 23 0.85
27 4 0.15
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.20
Consensus pattern (26 bp):
GGGAAGCTCACAAAGAGCCTATAATT
Found at i:11767422 original size:21 final size:21
Alignment explanation
Indices: 11767396--11767453 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
11767386 CGTGTTTTAC
*
11767396 TTTCTGTTCAACTCTTATGAG
1 TTTCTGTTCAACTCTTACGAG
*
11767417 TTTCTGTT-AAGCTTTTACGAG
1 TTTCTGTTCAA-CTCTTACGAG
*
11767438 CTTCTGTTCAACTCTT
1 TTTCTGTTCAACTCTT
11767454 TTGTATCGAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.17, C:0.21, G:0.14, T:0.48
Consensus pattern (21 bp):
TTTCTGTTCAACTCTTACGAG
Found at i:11769038 original size:57 final size:59
Alignment explanation
Indices: 11768946--11769093 Score: 185
Period size: 57 Copynumber: 2.5 Consensus size: 59
11768936 ACCCTAATTC
* *
11768946 GGATTACCCGTCCGGGCTAAATCTATTTTCCACATATTCTTCAGGAGGGCTATATC-A-A
1 GGATCACCCGTCCGGGCTAGATCT-TTTTCCACATATTCTTCAGGAGGGCTATATCGATA
* * *
11769004 -GATCACCCGTCCGGGTTAGATCTTTTTCAGACATATTCTTCGGGAGGGCTATATCAGGATA
1 GGATCACCCGTCCGGGCTAGATCTTTTTC-CACATATTCTTCAGGAGGGCTATATC--GATA
11769065 GGATCACCCGTCCGGGCTAGATCATTTTT
1 GGATCACCCGTCCGGGCTAGATC-TTTTT
11769094 ACCGTCAATT
Statistics
Matches: 77, Mismatches: 6, Indels: 9
0.84 0.07 0.10
Matches are distributed among these distances:
56 5 0.06
57 44 0.57
60 1 0.01
61 1 0.01
62 21 0.27
63 5 0.06
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (59 bp):
GGATCACCCGTCCGGGCTAGATCTTTTTCCACATATTCTTCAGGAGGGCTATATCGATA
Found at i:11772102 original size:78 final size:79
Alignment explanation
Indices: 11771972--11772130 Score: 311
Period size: 78 Copynumber: 2.0 Consensus size: 79
11771962 TAGTTTTATC
11771972 AATAGTTGTTTATATATGATTTTGGATATAAAATTTATTCACAGGTGATGAGTATAGTTGAGAAT
1 AATAGTTGTTTATATATGATTTTGGATATAAAATTTATTCACAGGTGATGAGTATAGTTGAGAAT
11772037 TATAGCGGTGATAA
66 TATAGCGGTGATAA
11772051 AATAGTTGTTTA-ATATGATTTTGGATATAAAATTTATTCACAGGTGATGAGTATAGTTGAGAAT
1 AATAGTTGTTTATATATGATTTTGGATATAAAATTTATTCACAGGTGATGAGTATAGTTGAGAAT
11772115 TATAGCGGTGATAA
66 TATAGCGGTGATAA
11772129 AA
1 AA
11772131 GTGATGATGA
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
78 68 0.85
79 12 0.15
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.38
Consensus pattern (79 bp):
AATAGTTGTTTATATATGATTTTGGATATAAAATTTATTCACAGGTGATGAGTATAGTTGAGAAT
TATAGCGGTGATAA
Found at i:11782243 original size:6 final size:6
Alignment explanation
Indices: 11782232--11782266 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
11782222 TTCTAAGACA
* *
11782232 GATGGT GATGGT GATGGT GATGGT AATGGT AATGG
1 GATGGT GATGGT GATGGT GATGGT GATGGT GATGG
11782267 AAGCTATCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (6 bp):
GATGGT
Found at i:11794021 original size:31 final size:31
Alignment explanation
Indices: 11793983--11794041 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
11793973 TTATAACATA
* *
11793983 TTTCATATTTTGTTTTCAATTCACTATCGTT
1 TTTCATATTCTATTTTCAATTCACTATCGTT
11794014 TTTCATATTCTATTTTCAATTCACTATC
1 TTTCATATTCTATTTTCAATTCACTATC
11794042 TCATATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.22, C:0.19, G:0.03, T:0.56
Consensus pattern (31 bp):
TTTCATATTCTATTTTCAATTCACTATCGTT
Found at i:11794185 original size:22 final size:22
Alignment explanation
Indices: 11794134--11794200 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
11794124 ACTAATGAAC
* *
11794134 AGAGAGCACTA-AAGTGCTATAC
1 AGAGAGCAC-AGAAGTGCTAAAT
* *
11794156 AGACAGCACAGATGTGCTAAAT
1 AGAGAGCACAGAAGTGCTAAAT
*
11794178 AGAGAGCACTGACA-TGCTAAAT
1 AGAGAGCACAGA-AGTGCTAAAT
11794200 A
1 A
11794201 TCAGAGAGCG
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
21 1 0.03
22 35 0.97
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (22 bp):
AGAGAGCACAGAAGTGCTAAAT
Found at i:11795237 original size:51 final size:52
Alignment explanation
Indices: 11795155--11795263 Score: 202
Period size: 51 Copynumber: 2.1 Consensus size: 52
11795145 GACGAAAAAA
11795155 AAATGTAATGGCTTGAATTTTCAGAGGTGTCGGAACGGTGATTCGAGATCACT
1 AAAT-TAATGGCTTGAATTTTCAGAGGTGTCGGAACGGTGATTCGAGATCACT
11795208 AAATTAATGGCTTG-ATTTTCAGAGGTGTCGGAACGGTGATTCGAGATCACT
1 AAATTAATGGCTTGAATTTTCAGAGGTGTCGGAACGGTGATTCGAGATCACT
11795259 AAATT
1 AAATT
11795264 CGACAAATGG
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
51 42 0.75
52 10 0.18
53 4 0.07
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (52 bp):
AAATTAATGGCTTGAATTTTCAGAGGTGTCGGAACGGTGATTCGAGATCACT
Found at i:11798420 original size:13 final size:14
Alignment explanation
Indices: 11798397--11798431 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
11798387 ACCAAAATTC
11798397 CCTTTTCTTTCTTT
1 CCTTTTCTTTCTTT
*
11798411 -CTTTTGTTTCTTT
1 CCTTTTCTTTCTTT
11798424 CCTTTTCT
1 CCTTTTCT
11798432 CATTCTCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.00, C:0.26, G:0.03, T:0.71
Consensus pattern (14 bp):
CCTTTTCTTTCTTT
Found at i:11800632 original size:17 final size:17
Alignment explanation
Indices: 11800610--11800649 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
11800600 AGTAAATATG
11800610 TAATTTTATTATTTTAA
1 TAATTTTATTATTTTAA
* *
11800627 TAA-TTTATTTTTTTTA
1 TAATTTTATTATTTTAA
11800643 TAATTTT
1 TAATTTT
11800650 TAAAGGATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
TAATTTTATTATTTTAA
Found at i:11816131 original size:17 final size:16
Alignment explanation
Indices: 11816109--11816150 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 16
11816099 GCTACCTATA
*
11816109 TTTTATTTCCTATTTCT
1 TTTTATTTCC-ATTTAT
11816126 TTTTATTTCCATTTAT
1 TTTTATTTCCATTTAT
11816142 TTTATATTT
1 TTT-TATTT
11816151 TACTAGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATTTCCATTTAT
Found at i:11816677 original size:24 final size:25
Alignment explanation
Indices: 11816660--11816710 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
11816650 AACATAATTT
*
11816660 TTTATTTATAAAATAACAGATATTA
1 TTTATTAATAAAATAACAGATATTA
* *
11816685 TTTGTTAATAAAATAA-AAATATTA
1 TTTATTAATAAAATAACAGATATTA
11816709 TT
1 TT
11816711 ATTTTATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (25 bp):
TTTATTAATAAAATAACAGATATTA
Found at i:11818611 original size:16 final size:17
Alignment explanation
Indices: 11818592--11818623 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11818582 AGGGGGTCTC
11818592 AACAGTACC-GAGCTCT
1 AACAGTACCTGAGCTCT
11818608 AACAGTACCTGAGCTC
1 AACAGTACCTGAGCTC
11818624 ACCCAGCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (17 bp):
AACAGTACCTGAGCTCT
Found at i:11829497 original size:17 final size:17
Alignment explanation
Indices: 11829477--11829514 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
11829467 ACAGAAATTT
*
11829477 AAAGAATAAATAAATAA
1 AAAGAAAAAATAAATAA
11829494 AAAGAAAAAATAAATAA
1 AAAGAAAAAATAAATAA
11829511 AAAG
1 AAAG
11829515 TTCTGGTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (17 bp):
AAAGAAAAAATAAATAA
Found at i:11838372 original size:16 final size:15
Alignment explanation
Indices: 11838347--11838376 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11838337 ACATGATCCC
11838347 TTTTTTTTTTTTCTT
1 TTTTTTTTTTTTCTT
11838362 TTTTTTCTTTTTTCT
1 TTTTTT-TTTTTTCT
11838377 GCTTTACAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTTTTTTTTTCTT
Found at i:11839342 original size:22 final size:22
Alignment explanation
Indices: 11839315--11839360 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
11839305 AAGTAAATAT
*
11839315 ATATAATATAATAATA-AAGTAA
1 ATATAATAAAATAA-ACAAGTAA
11839337 ATATAATAAAATAAACAAGTAA
1 ATATAATAAAATAAACAAGTAA
11839359 AT
1 AT
11839361 GAAACAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (22 bp):
ATATAATAAAATAAACAAGTAA
Found at i:11842518 original size:88 final size:88
Alignment explanation
Indices: 11842416--11842580 Score: 330
Period size: 88 Copynumber: 1.9 Consensus size: 88
11842406 TTTAAATGGT
11842416 ATTAGACCATTGGTTATTTATGGACAAAAATAGACATGGTTAGTAAGTAAGCTATTTAAGGGCAT
1 ATTAGACCATTGGTTATTTATGGACAAAAATAGACATGGTTAGTAAGTAAGCTATTTAAGGGCAT
11842481 TTTGGTAAAATGCCTTTAATGTA
66 TTTGGTAAAATGCCTTTAATGTA
11842504 ATTAGACCATTGGTTATTTATGGACAAAAATAGACATGGTTAGTAAGTAAGCTATTTAAGGGCAT
1 ATTAGACCATTGGTTATTTATGGACAAAAATAGACATGGTTAGTAAGTAAGCTATTTAAGGGCAT
11842569 TTTGGTAAAATG
66 TTTGGTAAAATG
11842581 GCTTAATTAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 77 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.35
Consensus pattern (88 bp):
ATTAGACCATTGGTTATTTATGGACAAAAATAGACATGGTTAGTAAGTAAGCTATTTAAGGGCAT
TTTGGTAAAATGCCTTTAATGTA
Found at i:11843333 original size:18 final size:17
Alignment explanation
Indices: 11843300--11843338 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
11843290 TTTTATAAAT
11843300 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
11843318 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
11843335 TGTG
1 TGTG
11843339 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:11850192 original size:41 final size:39
Alignment explanation
Indices: 11850148--11850279 Score: 133
Period size: 40 Copynumber: 3.4 Consensus size: 39
11850138 GACCTCGAGT
* *
11850148 CGATGAGACACTGGGTGTCAATCTATTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAA-CTATTACTTTGGATT-ATC
* * * * * *
11850189 CGATGAGGCATTAGGTGCCAA-T-TTACTTTGGTTTAGC
1 CGATGAGACACTGGGTGTCAACTATTACTTTGGATTATC
*
11850226 CGATGAGACACTGGGTGTCAACTTATTACTTTGAATTATC
1 CGATGAGACACTGGGTGTCAAC-TATTACTTTGGATTATC
*
11850266 CGATGAGGCACTGG
1 CGATGAGACACTGG
11850280 ATGCCAAACT
Statistics
Matches: 72, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
37 18 0.25
38 10 0.14
39 2 0.03
40 25 0.35
41 17 0.24
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAACTATTACTTTGGATTATC
Found at i:11879232 original size:19 final size:20
Alignment explanation
Indices: 11879189--11879232 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
11879179 TAAAAATTAA
11879189 AAAAAATTAAAAACATAGTT
1 AAAAAATTAAAAACATAGTT
*
11879209 TAAAAA-TAAAAACA-ATGTT
1 AAAAAATTAAAAACATA-GTT
11879228 AAAAA
1 AAAAA
11879233 TGTTTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 1 0.05
19 15 0.71
20 5 0.24
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAAAATTAAAAACATAGTT
Found at i:11880183 original size:9 final size:9
Alignment explanation
Indices: 11880169--11880235 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
11880159 GTAGTGATTC
*
11880169 AATTCGGGT
1 AATTCGGTT
*
11880178 AATTCGGGT
1 AATTCGGTT
*
11880187 AATCCGGTT
1 AATTCGGTT
11880196 AATTCGGTT
1 AATTCGGTT
11880205 AATTCGGTT
1 AATTCGGTT
*
11880214 AATTCGGGT
1 AATTCGGTT
11880223 AATTCGGTT
1 AATTCGGTT
11880232 AATT
1 AATT
11880236 TTTAATTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.24, C:0.12, G:0.25, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:11883276 original size:37 final size:37
Alignment explanation
Indices: 11883218--11883293 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
11883208 ACTAAGAGAG
*
11883218 GATGCTGTTCTACTTAGAAAGGTGATAGGTTACATTT
1 GATGCTGTTCTACTTAGAAAGGTCATAGGTTACATTT
11883255 GATGCTGTTCTACCTTA-AAAGGTCATAGGTTACATTT
1 GATGCTGTTCTA-CTTAGAAAGGTCATAGGTTACATTT
11883292 GA
1 GA
11883294 GAAGGTAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
37 33 0.89
38 4 0.11
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (37 bp):
GATGCTGTTCTACTTAGAAAGGTCATAGGTTACATTT
Found at i:11889657 original size:12 final size:12
Alignment explanation
Indices: 11889640--11889664 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11889630 GGTGTGCATT
11889640 CGGTTAACCGAC
1 CGGTTAACCGAC
11889652 CGGTTAACCGAC
1 CGGTTAACCGAC
11889664 C
1 C
11889665 CGAATTAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:11889841 original size:9 final size:9
Alignment explanation
Indices: 11889827--11889897 Score: 97
Period size: 9 Copynumber: 7.9 Consensus size: 9
11889817 TGGTTAAAAA
11889827 TTAACCGAC
1 TTAACCGAC
*
11889836 TTAACCGAT
1 TTAACCGAC
* *
11889845 TTAACTGAT
1 TTAACCGAC
11889854 TTAACCGAC
1 TTAACCGAC
* *
11889863 TTAACCAAT
1 TTAACCGAC
11889872 TTAACCGAC
1 TTAACCGAC
11889881 TTAACCGAC
1 TTAACCGAC
11889890 TTAACCGA
1 TTAACCGA
11889898 TTTAGTTCAA
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 54 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.28
Consensus pattern (9 bp):
TTAACCGAC
Found at i:11889857 original size:27 final size:27
Alignment explanation
Indices: 11889827--11889901 Score: 123
Period size: 27 Copynumber: 2.8 Consensus size: 27
11889817 TGGTTAAAAA
* *
11889827 TTAACCGACTTAACCGATTTAACTGAT
1 TTAACCGACTTAACCGATTTAACCGAC
*
11889854 TTAACCGACTTAACCAATTTAACCGAC
1 TTAACCGACTTAACCGATTTAACCGAC
11889881 TTAACCGACTTAACCGATTTA
1 TTAACCGACTTAACCGATTTA
11889902 GTTCAACTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.35, C:0.25, G:0.09, T:0.31
Consensus pattern (27 bp):
TTAACCGACTTAACCGATTTAACCGAC
Found at i:11890218 original size:36 final size:36
Alignment explanation
Indices: 11890171--11890302 Score: 147
Period size: 36 Copynumber: 3.6 Consensus size: 36
11890161 AATGGAGAAA
11890171 ACAAAAATTATAAACTAACAGAAATCAAATTACCCC
1 ACAAAAATTATAAACTAACAGAAATCAAATTACCCC
**** * ****
11890207 ACAAAAATTATAAACTAACATTTCTTGCATGAATGAGAAA
1 ACAAAAATTATAAACTAACA-GAAAT-CA--AATTACCCC
11890247 ACAAAAATTATAAACTAACAGAAATCAAATTACCCC
1 ACAAAAATTATAAACTAACAGAAATCAAATTACCCC
11890283 ACAAAAATTATAAACTAACA
1 ACAAAAATTATAAACTAACA
11890303 TTTCTGCTTC
Statistics
Matches: 74, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
36 44 0.59
37 1 0.01
38 4 0.05
39 1 0.01
40 24 0.32
ACGTcount: A:0.55, C:0.18, G:0.05, T:0.22
Consensus pattern (36 bp):
ACAAAAATTATAAACTAACAGAAATCAAATTACCCC
Found at i:11890282 original size:76 final size:77
Alignment explanation
Indices: 11890155--11890307 Score: 299
Period size: 76 Copynumber: 2.0 Consensus size: 77
11890145 TTAACCTTAC
11890155 TGCATGAATGGAGAAAACAAAAATTATAAACTAACAGAAATCAAATTACCCCACAAAAATTATAA
1 TGCATGAATGGAGAAAACAAAAATTATAAACTAACAGAAATCAAATTACCCCACAAAAATTATAA
11890220 ACTAACATTTCT
66 ACTAACATTTCT
11890232 TGCATGAAT-GAGAAAACAAAAATTATAAACTAACAGAAATCAAATTACCCCACAAAAATTATAA
1 TGCATGAATGGAGAAAACAAAAATTATAAACTAACAGAAATCAAATTACCCCACAAAAATTATAA
11890296 ACTAACATTTCT
66 ACTAACATTTCT
11890308 GCTTCCATTA
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
76 67 0.88
77 9 0.12
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (77 bp):
TGCATGAATGGAGAAAACAAAAATTATAAACTAACAGAAATCAAATTACCCCACAAAAATTATAA
ACTAACATTTCT
Found at i:11893714 original size:81 final size:81
Alignment explanation
Indices: 11893650--11894206 Score: 300
Period size: 81 Copynumber: 7.1 Consensus size: 81
11893640 GCAATACTCG
* * *
11893650 CCACCCGCTCAAGGTCGCACACCACCTACACAAGCTCATTCACCACCAACGCAATACCCGCCACC
1 CCACCCACTCAAGGTCGCACACCACCTACACAAGCTCATCCACCACCAACACAATACCCGCCACC
*
11893715 CACTCAAACTCATCCA
66 CACTCAAACGCATCCA
* * * * * *
11893731 CCACCTACTCAAGGTTGCACACCACCTACTCAAGCTCATCCACCACCAACACAATTCACACCACC
1 CCACCCACTCAAGGTCGCACACCACCTACACAAGCTCATCCACCACCAACACAATACCCGCCACC
* * *
11893796 CACTCAAGCTCATCCT
66 CACTCAAACGCATCCA
* ** * ** * *
11893812 CCACCAAGACAA--TAC-C-CACCACCTACTCAAGCTCATCCACCACCAAGGCAATACTCACCAC
1 CCACCCACTCAAGGT-CGCACACCACCTACACAAGCTCATCCACCACCAACACAATACCCGCCAC
*
11893873 CCACTCAAACACATCCA
65 CCACTCAAACGCATCCA
* * * ** * ** * *
11893890 CCA-CCAATGCAA--T---AC-TCACC-GC-CAA-CTCAAACTCCACCAAGGCGATACCTGCCAC
1 CCACCCACT-CAAGGTCGCACACCACCTACACAAGCTCATCCACCACCAACACAATACCCGCCAC
* * *
11893945 CCACTCAAGCTCATCCT
65 CCACTCAAACGCATCCA
* ** ** * * **
11893962 CCACCAAAGCAATACTCGC-CACC-CACT-CA-AGGC-CATCCACCACCCACACAA-ACTCATCC
1 CCACCCACTCAA-GGTCGCACACCAC-CTACACAAGCTCATCCACCACCAACACAATAC-CCGCC
* *
11894021 -TCCAC-C-AATGCAATACCCA
63 ACCCACTCAAACGC-AT--CCA
* * * *
11894040 CCACCCACTCAA--ACACATCCACCACCTACACAAGCTCATTCACCACCAACGCAATACCCGCCA
1 CCACCCACTCAAGGTCGCA--CACCACCTACACAAGCTCATCCACCACCAACACAATACCCGCCA
* *
11894103 CCCACTCGAACTCATCCA
64 CCCACTCAAACGCATCCA
* * * * * * *
11894121 CCACCTACTCAAGGTTGCACACCACCTACTCAAGCTCATCCTCCACCTAGACAATACCCACCACC
1 CCACCCACTCAAGGTCGCACACCACCTACACAAGCTCATCCACCACCAACACAATACCCGCCACC
* *
11894186 CACTCAAGCTCATCCA
66 CACTCAAACGCATCCA
11894202 CCACC
1 CCACC
11894207 AAGGCAATAC
Statistics
Matches: 362, Mismatches: 82, Indels: 64
0.71 0.16 0.13
Matches are distributed among these distances:
72 43 0.12
73 6 0.02
74 1 0.00
75 9 0.02
76 4 0.01
77 10 0.03
78 97 0.27
79 6 0.02
80 3 0.01
81 169 0.47
82 6 0.02
83 5 0.01
84 3 0.01
ACGTcount: A:0.32, C:0.47, G:0.07, T:0.14
Consensus pattern (81 bp):
CCACCCACTCAAGGTCGCACACCACCTACACAAGCTCATCCACCACCAACACAATACCCGCCACC
CACTCAAACGCATCCA
Found at i:11893727 original size:39 final size:39
Alignment explanation
Indices: 11893669--11895317 Score: 438
Period size: 39 Copynumber: 42.3 Consensus size: 39
11893659 CAAGGTCGCA
* * *
11893669 CACCACCTACACAAGCTCATTCACCACCAACGCAATACC
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * * * * *
11893708 CGCCACCCACTCAAACTCATCCACCACCTACTCAAGGTTGCA
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAA---TACC
* * * *
11893750 CACCACCTACTCAAGCTCATCCACCACCAACACAATTCA
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
*
11893789 CACCACCCACTCAAGCTCATCCTCCACCAA-GACAATACC
1 CACCACCCACTCAAGCTCATCCACCACCAACG-CAATACC
* * *
11893828 CACCACCTACTCAAGCTCATCCACCACCAAGGCAATACT
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * * *
11893867 CACCACCCACTCAAACACATCCACCACCAATGCAATACT
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * * * *
11893906 CACCGCCAACTCAA----A--CTCCACCAAGGCGATACC
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
** * * *
11893939 TGCCACCCACTCAAGCTCATCCTCCACCAAAGCAATACT
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * * *
11893978 CGCCACCCACTCAAGGC-CATCCACCACCCACACAA-ACT
1 CACCACCCACTCAA-GCTCATCCACCACCAACGCAATACC
* * * * *
11894016 CATCC-TCCAC-CAATGCAAT-ACCCACCACCCACTCAAACACATC
1 CA-CCACCCACTCAA-GC--TCATCCACCACCAACGC-AATAC--C
* * *
11894059 CACCACCTACACAAGCTCATTCACCACCAACGCAATACC
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * * * *
11894098 CGCCACCCACTCGAA-CTCATCCACCACCTACTCAAGGTTGCA
1 CACCACCCACTC-AAGCTCATCCACCACCAACGCAA---TACC
* * *
11894140 CACCACCTACTCAAGCTCATCCTCCACCTA-GACAATACC
1 CACCACCCACTCAAGCTCATCCACCACCAACG-CAATACC
* *
11894179 CACCACCCACTCAAGCTCATCCACCACCAAGGCAATACT
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * * * * * * *
11894218 CGCCACCCACTCAAACACATCCACCGCCCACAC-AGACT
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * * * *
11894256 CATCC-TCCAC-CAAGGCAAT-ACCCACCACCCACTCAA-ACA
1 CA-CCACCCACTCAA-GC--TCATCCACCACCAACGCAATACC
* * *
11894295 CATCCA-CCAC-CAATGC-AATACTCACCGCCAACTCAA-A--
1 CA-CCACCCACTCAA-GCTCAT-C-CACCACCAACGCAATACC
* * ** * * * * *
11894332 CTCCACCTAGGCAA--T-ACCCGCCACCCACTCAAGCTCATC
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAA--T-ACC
* * ** * * * * *
11894371 CTCCACCAAGGCAATACTC-GCCACCCCCTCAAGGCCAT--C
1 CACCACCCACTCAA-GCTCATCCA-CCAC-CAACGCAATACC
* * * *
11894410 CACCACCAACTCAAACTCCTCCA-CA--AAGGCAATACC
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * * *
11894446 CGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATACT
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * *
11894485 CGCCACCCCCTCAAGGC-CATCCACCACCAACTCAA-ACTC
1 CACCACCCACTCAA-GCTCATCCACCACCAACGCAATAC-C
* ** ** * * * * **
11894524 CTCCACAAAGGCAA--T-ACCCGCCACCCACTCAAGCTCATT
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAA--T-ACC
* * * * * *
11894563 CACCACCAACACAATACTC-GCCACCTACTCAAGGCCAT--C
1 CACCACCCACTCAA-GCTCATCCACC-AC-CAACGCAATACC
* * * * * * *
11894602 CGCCACCCATTCAAGTTCATCCTCCACCAAGGCAGTACT
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * **
11894641 CGCCACCCATTCAAGGC-CATCCACCACCAATACAATACC
1 CACCACCCACTCAA-GCTCATCCACCACCAACGCAATACC
* * *
11894680 CACCACCCACTCAA-ATACATCCACCGCCAACTCAA-ACTC
1 CACCACCCACTCAAGCT-CATCCACCACCAACGCAATAC-C
* ** ** * * * * **
11894719 CTCCACAAAGGCAA--T-ACCCGCCACCCACTCAAGCTCATT
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAA--T-ACC
* * * * * *
11894758 CACCACCAACACAATACTC-GCCACCTACTCAAGGCCAT--C
1 CACCACCCACTCAA-GCTCATCCACC-AC-CAACGCAATACC
* * * * * *
11894797 CGCCACCCATTCAAGTTCATCCTCCACCAAGGCAATCCC
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * * *
11894836 CCCCACCCATTCAAGCTCATCCACCACCAAGGCAATACT
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * * *
11894875 CGCCACCCACTCAAGCTCATTCACCACCAACACAATACT
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * *
11894914 CGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATACC
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * *
11894953 CACCACCCATTCAAGCTCATCCACCACCAAGGCAATACT
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * * * *
11894992 CGCCACCCACTCAAGGC-CATCCACCACCTACACTA-ACT
1 CACCACCCACTCAA-GCTCATCCACCACCAACGCAATACC
* * * *
11895030 CACC-CTCCAC-CAAGGC-AATGCCCACCACCCACTCAA-ACA
1 CACCAC-CCACTCAA-GCTCAT--CCACCACCAACGCAATACC
* *
11895069 CATCCA-CCAC-CAA-CTCAAACTCCTCCACCAAGGCAATACC
1 CA-CCACCCACTCAAGCTC--A-TCCACCACCAACGCAATACC
* * * *
11895109 CGCCACCCACTCAAGCACATCCACCACCAAGGCTATACC
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * * * *
11895148 CACCACCTATTCAAGCTCATCCACCACCCACTCAA-ACA
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * * * * *
11895186 CATCCA-CCGC-CAACGCAAT-ACCCGCCACCCACACAAGCTCATC
1 CA-CCACCCACTCAA-GC--TCATCCACCACCAACGCAA--T-ACC
* * * * * *
11895229 CGCCACCCACTCAAACCCATCCACCATCAAGGCAATACT
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
* * * * *
11895268 CACCACCCATTCAAACACATCCACCACCAATGCAATACA
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
*
11895307 CGCCACCCACT
1 CACCACCCACT
11895318 AAAGGTTGTG
Statistics
Matches: 1210, Mismatches: 282, Indels: 236
0.70 0.16 0.14
Matches are distributed among these distances:
33 35 0.03
34 8 0.01
35 2 0.00
36 49 0.04
37 45 0.04
38 56 0.05
39 829 0.69
40 29 0.02
41 13 0.01
42 106 0.09
43 20 0.02
44 18 0.01
ACGTcount: A:0.32, C:0.47, G:0.07, T:0.13
Consensus pattern (39 bp):
CACCACCCACTCAAGCTCATCCACCACCAACGCAATACC
Found at i:11893733 original size:60 final size:60
Alignment explanation
Indices: 11893625--11893743 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
11893615 CTATTGAAAG
* * **
11893625 TCATCCACCACCAACGCAATACTCGCCACCCGCTCAAGGTCGCACACCACCTACACAAGC
1 TCATCCACCACCAACGCAATACCCGCCACCCACTCAAACTCGCACACCACCTACACAAGC
* * *
11893685 TCATTCACCACCAACGCAATACCCGCCACCCACTCAAACTCATC-CACCACCTACTCAAG
1 TCATCCACCACCAACGCAATACCCGCCACCCACTCAAACTC-GCACACCACCTACACAAG
11893744 GTTGCACACC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 50 0.98
61 1 0.02
ACGTcount: A:0.31, C:0.47, G:0.08, T:0.13
Consensus pattern (60 bp):
TCATCCACCACCAACGCAATACCCGCCACCCACTCAAACTCGCACACCACCTACACAAGC
Found at i:11893734 original size:21 final size:21
Alignment explanation
Indices: 11893710--11893896 Score: 92
Period size: 21 Copynumber: 9.3 Consensus size: 21
11893700 GCAATACCCG
*
11893710 CCACCCACTCAAACTCATCCA
1 CCACCAACTCAAACTCATCCA
* **
11893731 CCACCTACTCAAGGT--TGCACA
1 CCACCAACTCAAACTCAT-C-CA
* *
11893752 CCACCTACTCAAGCTCATCCA
1 CCACCAACTCAAACTCATCCA
* *
11893773 CCACCAACAC-AATTCA--CA
1 CCACCAACTCAAACTCATCCA
* * *
11893791 CCACCCACTCAAGCTCATCCT
1 CCACCAACTCAAACTCATCCA
** *
11893812 CCACCAAGAC-AA-T-ACCCA
1 CCACCAACTCAAACTCATCCA
* *
11893830 CCACCTACTCAAGCTCATCCA
1 CCACCAACTCAAACTCATCCA
**
11893851 CCACCAAGGCAATACTCA-CCA
1 CCACCAACTCAA-ACTCATCCA
*
11893872 -C-CC-ACTCAAACACATCCA
1 CCACCAACTCAAACTCATCCA
11893890 CCACCAA
1 CCACCAA
11893897 TGCAATACTC
Statistics
Matches: 120, Mismatches: 31, Indels: 30
0.66 0.17 0.17
Matches are distributed among these distances:
17 4 0.03
18 27 0.22
19 10 0.08
20 10 0.08
21 63 0.52
22 5 0.04
23 1 0.01
ACGTcount: A:0.34, C:0.47, G:0.05, T:0.14
Consensus pattern (21 bp):
CCACCAACTCAAACTCATCCA
Found at i:11893816 original size:60 final size:60
Alignment explanation
Indices: 11893750--11894473 Score: 260
Period size: 60 Copynumber: 12.1 Consensus size: 60
11893740 CAAGGTTGCA
* * *
11893750 CACCACCTACTCAAGCTCATCCACCACCAACACAATTCACACCACCCACTCAA-GCTCATC
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACACACCACCCACTCAAGGC-CATC
* * ** * * * * * *
11893810 CTCCACCAAGACAA--T-ACCCACCACCTACTCAA-GCTCATCCA-CCAC-CAAGGCAATAC
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACACA-CCACCCACTCAAGGCCAT-C
* * *
11893866 TCACCACCCACTCAAACACATCCACCACCAATGCAATACTCACCGCCAACTCAAACTCCAC-CAA
1 -CACCACCCACTCAAGCTCATCCACCACCAACGCAATA--CA----C-AC-C--AC-CCACTCAA
*
11893930 GGCGATAC
54 GGCCAT-C
* * * * *
11893938 CTGCCACCCACTCAAGCTCATCCTCCACCAAAGCAATACTCGCCACCCACTCAAGGCCATC
1 C-ACCACCCACTCAAGCTCATCCACCACCAACGCAATACACACCACCCACTCAAGGCCATC
* * * * * *
11893999 CACCACCCACACAAACTCATCCTCCACCAATGCAATACCCACCACCCACTCAA-ACACATC
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACACACCACCCACTCAAGGC-CATC
* * * * *
11894059 CACCACCTACACAAGCTCATTCACCACCAACGCAATACCCGCCACCCACTCGAA--CTCATC
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACACACCACCCACTC-AAGGC-CATC
* * * * * * * * * *
11894119 CACCACCTACTCAAGGT--TGCACACCACCTACTCAA-GCTCATCC-TCCAC-CTAGACAATACC
1 CACCACCCACTCAAGCTCAT-C-CACCACCAACGCAATACACA-CCACCCACTCAAGGCCAT--C
* * * *
11894179 CACCACCCACTCAAGCTCATCCACCACCAAGGCAATACTCGCCACCCACTCAA-ACACATC
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACACACCACCCACTCAAGGC-CATC
* * * * * *
11894239 CACCGCCCACAC-AGACTCATCCTCCACCAAGGCAATACCCACCACCCACTCAA-ACACATC
1 CACCACCCACTCAAG-CTCATCCACCACCAACGCAATACACACCACCCACTCAAGGC-CATC
* * * * *
11894299 CACCA-CCAATGCAA--T-A-CTCACCGCCAACTC-A-A-ACTCCA--C-CT--AGGCAATACC
1 CACCACCCACT-CAAGCTCATC-CACCACCAACGCAATACACACCACCCACTCAAGGCCAT--C
* * * * * *
11894350 CGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCGCCACCCCCTCAAGGCCATC
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACACACCACCCACTCAAGGCCATC
* * * * * *
11894410 CACCACCAACTCAAACTCCTCCA-CA--AAGGCAATACCCGCCACCCACTCAA-GCTCATC
1 CACCACCCACTCAAGCTCATCCACCACCAACGCAATACACACCACCCACTCAAGGC-CATC
*
11894467 CTCCACC
1 CACCACC
11894474 AAGGCAATAC
Statistics
Matches: 508, Mismatches: 98, Indels: 119
0.70 0.14 0.16
Matches are distributed among these distances:
49 3 0.01
50 1 0.00
51 10 0.02
52 5 0.01
53 1 0.00
54 13 0.03
55 8 0.02
56 15 0.03
57 74 0.15
58 6 0.01
59 16 0.03
60 260 0.51
61 19 0.04
62 21 0.04
63 1 0.00
64 1 0.00
65 1 0.00
66 1 0.00
67 2 0.00
68 2 0.00
70 2 0.00
71 1 0.00
72 45 0.09
ACGTcount: A:0.32, C:0.47, G:0.07, T:0.13
Consensus pattern (60 bp):
CACCACCCACTCAAGCTCATCCACCACCAACGCAATACACACCACCCACTCAAGGCCATC
Found at i:11893870 original size:18 final size:18
Alignment explanation
Indices: 11893849--11893928 Score: 54
Period size: 18 Copynumber: 4.3 Consensus size: 18
11893839 CAAGCTCATC
*
11893849 CACCACCAAGGCAATACT
1 CACCACCAACGCAATACT
* * *
11893867 CACCACCCACTCAAACACAT
1 CACCACCAACGC-AATAC-T
*
11893887 CCACCACCAATGCAATACT
1 -CACCACCAACGCAATACT
* *
11893906 CACCGCCAACTCAA-ACT
1 CACCACCAACGCAATACT
11893923 CCACCA
1 -CACCA
11893929 AGGCGATACC
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
17 3 0.07
18 24 0.52
19 5 0.11
20 5 0.11
21 9 0.20
ACGTcount: A:0.38, C:0.46, G:0.05, T:0.11
Consensus pattern (18 bp):
CACCACCAACGCAATACT
Found at i:11894061 original size:96 final size:96
Alignment explanation
Indices: 11893921--11894914 Score: 526
Period size: 96 Copynumber: 10.0 Consensus size: 96
11893911 CCAACTCAAA
* * *
11893921 CTCCACCAAGGCGATACCTGCCACCCACTCAAGCTCATCCTCCACCAAAGCAATACTCGCCACCC
1 CTCCACCAAGGCAATACCCGCCACCCACTCAAG--CA-CATCCACCAAAGCAATACTCGCCACCC
* *
11893986 ACTCAAGGCCATCCACCACCCACACAAACTCATC
63 ACTCAAGGCCATCCACCACCAACTCAAACTCATC
* * * * **
11894020 CTCCACCAATGCAATACCCACCACCCACTCAAACACATCCACCACCTACA-CAA-GCTCATTCA-
1 CTCCACCAAGGCAATACCCGCCACCCACTCAAGCACATCCACCA---A-AGCAATACTC-GCCAC
* * * * *
11894082 CCAC-CAACGCAATACCCGCCACCCACTCGAACTCATC
61 CCACTCAAGGCCAT--CCACCACCAACTCAAACTCATC
* * ** * * * * * * * * *
11894119 CACCACCTACTCAAGGTTGCACACCACCTACTCAAGCTCATCCTCCACCTAGACAATACCCACCA
1 CTCCACCAAGGCAA---TACCCGCCACCCACTCAAGCACATCCACCA--AAG-CAATACTCGCCA
** *
11894184 CCCACTCAA-GCTCATCCACCACCAAGGCAATACTC-GC
60 CCCACTCAAGGC-CATCCACCACCAACTCAA-ACTCATC
* * * * * * * *
11894221 CACCCACTCAA-ACACATCCACCGCCCACACAGACTC-ATC-C-TCCACCAAGGCAATACCCACC
1 C-TCCAC-CAAGGCA-ATAC-CCG-CCAC-C-CACTCAAGCACATCCACCAAAGCAATACTCGCC
*
11894282 ACCCACTCAA-ACACATCCACCACCAA-TGCAATACTCACCGCCAACTC
59 ACCCACTCAAGGC-CATCCACCACCAACT-CAA-ACT------C-A-TC
* * *
11894329 AAACTCCACCTAGGCAATACCCGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCGCCA
1 ---CTCCACCAAGGCAATACCCGCCACCCACTCAAG--CA-CATCCACCAAAGCAATACTCGCCA
*
11894394 CCCCCTCAAGGCCATCCACCACCAACTCAAA--C-TC
60 CCCACTCAAGGCCATCCACCACCAACTCAAACTCATC
* * *
11894428 CTCCACAAAGGCAATACCCGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCGCCACCC
1 CTCCACCAAGGCAATACCCGCCACCCACTCAAG--CA-CATCCACCAAAGCAATACTCGCCACCC
*
11894493 CCTCAAGGCCATCCACCACCAACTCAAA--C-TC
63 ACTCAAGGCCATCCACCACCAACTCAAACTCATC
* *
11894524 CTCCACAAAGGCAATACCCGCCACCCACTCAAGCTCATTCACCACCAACA-CAATACTCGCCACC
1 CTCCACCAAGGCAATACCCGCCACCCACTCAAGCACA-T--CCACCAA-AGCAATACTCGCCACC
* * * * **
11894588 TACTCAAGGCCATCCGCCACCCATTCAAGTTCATC
62 CACTCAAGGCCATCCACCACCAACTCAAACTCATC
* * * * * *
11894623 CTCCACCAAGGCAGTACTCGCCACCCATTCAAGGC-CATCCACCACCAATACAATACCCACCACC
1 CTCCACCAAGGCAATACCCGCCACCCACTCAA-GCACATCCACCA--AA-GCAATACTCGCCACC
*** *
11894687 CACTCAAATACATCCACCGCCAACTCAAA--C-TC
62 CACTCAAGGCCATCCACCACCAACTCAAACTCATC
* *
11894719 CTCCACAAAGGCAATACCCGCCACCCACTCAAGCTCATTCACCACCAACA-CAATACTCGCCACC
1 CTCCACCAAGGCAATACCCGCCACCCACTCAAGCACA-T--CCACCAA-AGCAATACTCGCCACC
* * * * **
11894783 TACTCAAGGCCATCCGCCACCCATTCAAGTTCATC
62 CACTCAAGGCCATCCACCACCAACTCAAACTCATC
* * * *
11894818 CTCCACCAAGGCAATCCCCCCCACCCATTCAAGCTCATCCACCACCAAGGCAATACTCGCCACCC
1 CTCCACCAAGGCAATACCCGCCACCCACTCAAGCACATCCACCA--AA-GCAATACTCGCCACCC
* *
11894883 ACTCAA-GCTCATTCACCACCAACACAATACTC
63 ACTCAAGGC-CATCCACCACCAACTCAA-ACTC
11894915 GCCACCCACT
Statistics
Matches: 708, Mismatches: 115, Indels: 143
0.73 0.12 0.15
Matches are distributed among these distances:
93 1 0.00
94 2 0.00
95 2 0.00
96 255 0.36
97 14 0.02
98 16 0.02
99 245 0.35
100 7 0.01
101 3 0.00
102 49 0.07
103 23 0.03
104 11 0.02
105 9 0.01
106 2 0.00
107 4 0.01
108 5 0.01
109 5 0.01
110 8 0.01
111 45 0.06
112 2 0.00
ACGTcount: A:0.31, C:0.47, G:0.08, T:0.14
Consensus pattern (96 bp):
CTCCACCAAGGCAATACCCGCCACCCACTCAAGCACATCCACCAAAGCAATACTCGCCACCCACT
CAAGGCCATCCACCACCAACTCAAACTCATC
Found at i:11894302 original size:120 final size:119
Alignment explanation
Indices: 11893941--11894305 Score: 391
Period size: 120 Copynumber: 3.0 Consensus size: 119
11893931 GCGATACCTG
* *
11893941 CCACCCACTCAAGCTCATCCTCCACCAAAGCAATACTCGCCACCCACTCAAGGCCATCCACCACC
1 CCACCCACTCAAGCTCATCCACCACCAAAGCAATACTCGCCACCCACTCAA-ACCATCCACCACC
* *
11894006 CACACAAACTCATCCTCCACCAATGCAATACCCACCACCCACTCAAACACATCCA
65 CACACAGACTCATCCTCCACCAACGCAATACCCACCACCCACTCAAACACATCCA
* * * * * *
11894061 CCACCTACACAAGCTCATTCACCACCAACGCAATACCCGCCACCCACTCGAACTCATCCACCACC
1 CCACCCACTCAAGCTCATCCACCACCAAAGCAATACTCGCCACCCACTCAAAC-CATCCACCACC
* * ** * * * * * * *
11894126 TACTCAAGGTTGCA--CACCACCTACTCAA-GCTCATCC-TCCAC-CTAGACA-ATACCCA
65 CACAC-AGACT-CATCCTCCACCAACGCAATACCCA-CCACCCACTC-AAACACAT--CCA
* *
11894181 CCACCCACTCAAGCTCATCCACCACCAAGGCAATACTCGCCACCCACTCAAACACATCCACCGCC
1 CCACCCACTCAAGCTCATCCACCACCAAAGCAATACTCGCCACCCACTCAAAC-CATCCACCACC
*
11894246 CACACAGACTCATCCTCCACCAAGGCAATACCCACCACCCACTCAAACACATCCA
65 CACACAGACTCATCCTCCACCAACGCAATACCCACCACCCACTCAAACACATCCA
11894301 CCACC
1 CCACC
11894306 AATGCAATAC
Statistics
Matches: 191, Mismatches: 41, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
118 5 0.03
119 15 0.08
120 153 0.80
121 13 0.07
122 5 0.03
ACGTcount: A:0.32, C:0.48, G:0.06, T:0.13
Consensus pattern (119 bp):
CCACCCACTCAAGCTCATCCACCACCAAAGCAATACTCGCCACCCACTCAAACCATCCACCACCC
ACACAGACTCATCCTCCACCAACGCAATACCCACCACCCACTCAAACACATCCA
Found at i:11894402 original size:72 final size:72
Alignment explanation
Indices: 11894260--11894395 Score: 200
Period size: 72 Copynumber: 1.9 Consensus size: 72
11894250 CAGACTCATC
* *
11894260 CTCCACCAAGGCAATACCCACCACCCACTCAAACACATCCACCACCAATGCAATACTCACCGCCA
1 CTCCACCAAGGCAATACCCACCACCCACTCAAACACATCCACCACCAAGGCAATACTCACCACCA
11894325 ACTCAAA
66 ACTCAAA
* * * * * *
11894332 CTCCACCTAGGCAATACCCGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCGCCACC
1 CTCCACCAAGGCAATACCCACCACCCACTCAAACACATCCACCACCAAGGCAATACTCACCACC
11894396 CCCTCAAGGC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
72 56 1.00
ACGTcount: A:0.32, C:0.47, G:0.08, T:0.12
Consensus pattern (72 bp):
CTCCACCAAGGCAATACCCACCACCCACTCAAACACATCCACCACCAAGGCAATACTCACCACCA
ACTCAAA
Found at i:11894509 original size:57 final size:56
Alignment explanation
Indices: 11894465--11894572 Score: 155
Period size: 57 Copynumber: 1.9 Consensus size: 56
11894455 CTCAAGCTCA
* * *
11894465 TCCTCCACCAAGGCAATACTCGCCACCCCCTCAAGGCCATCCACCACCAACTCAAAC
1 TCCTCCACAAAGGCAATACCCGCCACCCACTCAAGGCCATCCACCACCAACTC-AAC
*
11894522 TCCTCCACAAAGGCAATACCCGCCACCCACTCAA-GCTCATTCACCACCAAC
1 TCCTCCACAAAGGCAATACCCGCCACCCACTCAAGGC-CATCCACCACCAAC
11894573 ACAATACTCG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
56 2 0.04
57 44 0.96
ACGTcount: A:0.31, C:0.48, G:0.08, T:0.13
Consensus pattern (56 bp):
TCCTCCACAAAGGCAATACCCGCCACCCACTCAAGGCCATCCACCACCAACTCAAC
Found at i:11894610 original size:60 final size:60
Alignment explanation
Indices: 11894541--11894668 Score: 166
Period size: 60 Copynumber: 2.1 Consensus size: 60
11894531 AAGGCAATAC
* *
11894541 CCGCCACCCACTCAAGCTCATTCACCACCAACACAATACTCGCCACCTACTCAAGGCCAT
1 CCGCCACCCACTCAAGCTCATCCACCACCAACACAATACTCGCCACCCACTCAAGGCCAT
* * * ** * *
11894601 CCGCCACCCATTCAAGTTCATCCTCCACCAAGGCAGTACTCGCCACCCATTCAAGGCCAT
1 CCGCCACCCACTCAAGCTCATCCACCACCAACACAATACTCGCCACCCACTCAAGGCCAT
*
11894661 CCACCACC
1 CCGCCACC
11894669 AATACAATAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
60 58 1.00
ACGTcount: A:0.27, C:0.47, G:0.10, T:0.16
Consensus pattern (60 bp):
CCGCCACCCACTCAAGCTCATCCACCACCAACACAATACTCGCCACCCACTCAAGGCCAT
Found at i:11894615 original size:21 final size:21
Alignment explanation
Indices: 11894581--11894668 Score: 56
Period size: 21 Copynumber: 4.3 Consensus size: 21
11894571 ACACAATACT
* *
11894581 CGCCACCTACTCAAGGCCATC
1 CGCCACCCATTCAAGGCCATC
**
11894602 CGCCACCCATTCAAGTTCATC
1 CGCCACCCATTCAAGGCCATC
* * ** **
11894623 CTCCACCAAGGC-AGTAC-T-
1 CGCCACCCATTCAAGGCCATC
11894641 CGCCACCCATTCAAGGCCATC
1 CGCCACCCATTCAAGGCCATC
*
11894662 CACCACC
1 CGCCACC
11894669 AATACAATAC
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
18 8 0.17
19 4 0.08
20 5 0.10
21 31 0.65
ACGTcount: A:0.25, C:0.47, G:0.12, T:0.16
Consensus pattern (21 bp):
CGCCACCCATTCAAGGCCATC
Found at i:11894734 original size:156 final size:155
Alignment explanation
Indices: 11894445--11895317 Score: 619
Period size: 156 Copynumber: 5.6 Consensus size: 155
11894435 AAGGCAATAC
**
11894445 CCGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCGCCACCCCCTCAAGGC-CATCCAC
1 CCGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCGCCACCCATTCAA-GCACATCCAC
** * ** ** * * * *
11894509 CACCAACTCAA-ACTCCTCCACAAAGGC-AAT-ACCCGCCACCCACTCAAGCTCATTCACCACCA
65 CACCAAGGCAATAC-CCACCACCCACTCAAATCATCCACCACCAACTCAAACTC---CACCACCA
* * *
11894571 ACACAATACTCGCCACCTACTCAAGGC-CAT
126 ACGCAATACCCGCCACCCACTCAA-GCTCAT
* * *
11894601 CCGCCACCCATTCAAGTTCATCCTCCACCAAGGCAGTACTCGCCACCCATTCAAGGC-CATCCAC
1 CCGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCGCCACCCATTCAA-GCACATCCAC
** * * * *
11894665 CACCAATACAATACCCACCACCCACTCAAATACATCCACCGCCAACTCAAACTCCTCCACAAAGG
65 CACCAAGGCAATACCCACCACCCACTCAAAT-CATCCACCACCAACTCAAACTCCACCACCAACG
11894730 CAATACCCGCCACCCACTCAAGCTCAT
129 CAATACCCGCCACCCACTCAAGCTCAT
* * * * * * * * **
11894757 TCACCACCAACACAATACTC-GCCACCTACTCAAGGCCAT-C-CGCCACCCATTCAAGTTCATCC
1 CCGCCACCCACTCAA-GCTCATCCTCC-AC-CAAGGCAATACTCGCCACCCATTCAAGCACATCC
* * * * * ** * *
11894819 TCCACCAAGGCAATCCCCCCCACCCATTCAAGCTCATCCACCACCAAGGCAATACT-CGCCACCC
63 ACCACCAAGGCAATACCCACCACCCACTCAA-ATCATCCACCACCAACTCAA-ACTCCACCACCA
* * *** *
11894883 ACTCAA-GCTCATTCA-CCAC-CAA-CACAAT
126 ACGCAATAC-CCGCCACCCACTCAAGCTC-AT
* * *
11894911 ACTCGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATACCCACCACCCATTCAAGCTCATCCA
1 -C-CGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCGCCACCCATTCAAGCACATCCA
* * ** * * * *
11894976 CCACCAAGGCAATACTCGCCACCCACTCAAGGCCATCCACCACCTACACTAACTCACCCTCCACC
64 CCACCAAGGCAATACCCACCACCCACTCAA-ATCATCCACCACCAACTCAAACT---CCACCACC
* * * * *
11895041 AAGGCAATGCCCACCACCCACTCAAACACAT
125 AACGCAATACCCGCCACCCACTCAAGCTCAT
* * * * *
11895072 CCACCACCAACTCAA--AC-TCCTCCACCAAGGCAATACCCGCCACCCACTCAAGCACATCCACC
1 CCGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCGCCACCCATTCAAGCACATCCACC
* * * * * *
11895134 ACCAAGGCTATACCCACCACCTATTCAAGCTCATCCACCACCCACTCAAACACATCCACCGCCAA
66 ACCAAGGCAATACCCACCACCCACTCAA-ATCATCCACCACCAACTC-AA-AC-TCCACCACCAA
*
11895199 CGCAATACCCGCCACCCACACAAGCTCAT
127 CGCAATACCCGCCACCCACTCAAGCTCAT
* * * * * *
11895228 CCGCCACCCACTCAAACCCATCCACCATCAAGGCAATACTCACCACCCATTCAAACACATCCACC
1 CCGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCGCCACCCATTCAAGCACATCCACC
* * *
11895293 ACCAATGCAATACACGCCACCCACT
66 ACCAAGGCAATACCCACCACCCACT
11895318 AAAGGTTGTG
Statistics
Matches: 563, Mismatches: 122, Indels: 61
0.75 0.16 0.08
Matches are distributed among these distances:
153 2 0.00
154 13 0.02
155 17 0.03
156 390 0.69
157 16 0.03
158 10 0.02
159 100 0.18
160 7 0.01
161 5 0.01
162 3 0.01
ACGTcount: A:0.32, C:0.47, G:0.08, T:0.14
Consensus pattern (155 bp):
CCGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCGCCACCCATTCAAGCACATCCACC
ACCAAGGCAATACCCACCACCCACTCAAATCATCCACCACCAACTCAAACTCCACCACCAACGCA
ATACCCGCCACCCACTCAAGCTCAT
Found at i:11894744 original size:195 final size:195
Alignment explanation
Indices: 11894317--11894888 Score: 834
Period size: 195 Copynumber: 3.0 Consensus size: 195
11894307 ATGCAATACT
** * *
11894317 CACCGCCAACTCAAA---CTCCACCTAGGCAATACCCGCCACCCACTCAAGCTCATCCTCCACCA
1 CACCGCCAACTCAAACTCCTCCACAAAGGCAATACCCGCCACCCACTCAAGCTCATTCACCACCA
** ** * * * * *
11894379 AGGCAATACTCGCCACCCCCTCAAGGCCATCCACCACCAACTCAA--AC-TCCTCCACAAAGGCA
66 ACACAATACTCGCCACCTACTCAAGGCCATCCGCCACCCATTCAAGTTCATCCTCCACCAAGGCA
* * * * *
11894441 ATACCCGCCACCCACTCAAGCTCATCCTCCACCAAGGCAATACTCGCCACCCCCTCAAGGCCATC
131 ATACCCGCCACCCATTCAAGCTCATCCACCACCAAGGCAATACTCGCCACCCACTCAAAGACATC
*
11894506 CACCACCAACTCAAACTCCTCCACAAAGGCAATACCCGCCACCCACTCAAGCTCATTCACCACCA
1 CACCGCCAACTCAAACTCCTCCACAAAGGCAATACCCGCCACCCACTCAAGCTCATTCACCACCA
11894571 ACACAATACTCGCCACCTACTCAAGGCCATCCGCCACCCATTCAAGTTCATCCTCCACCAAGGCA
66 ACACAATACTCGCCACCTACTCAAGGCCATCCGCCACCCATTCAAGTTCATCCTCCACCAAGGCA
* * ** * * *
11894636 GTACTCGCCACCCATTCAAGGC-CATCCACCACCAATACAATACCCACCACCCACTCAAATACAT
131 ATACCCGCCACCCATTCAA-GCTCATCCACCACCAAGGCAATACTCGCCACCCACTCAAAGACAT
11894700 C
195 C
11894701 CACCGCCAACTCAAACTCCTCCACAAAGGCAATACCCGCCACCCACTCAAGCTCATTCACCACCA
1 CACCGCCAACTCAAACTCCTCCACAAAGGCAATACCCGCCACCCACTCAAGCTCATTCACCACCA
11894766 ACACAATACTCGCCACCTACTCAAGGCCATCCGCCACCCATTCAAGTTCATCCTCCACCAAGGCA
66 ACACAATACTCGCCACCTACTCAAGGCCATCCGCCACCCATTCAAGTTCATCCTCCACCAAGGCA
* *
11894831 ATCCCCCCCACCCATTCAAGCTCATCCACCACCAAGGCAATACTCGCCACCCACTCAA
131 ATACCCGCCACCCATTCAAGCTCATCCACCACCAAGGCAATACTCGCCACCCACTCAA
11894889 GCTCATTCAC
Statistics
Matches: 340, Mismatches: 35, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
189 14 0.04
192 81 0.24
194 3 0.01
195 240 0.71
196 2 0.01
ACGTcount: A:0.31, C:0.47, G:0.09, T:0.14
Consensus pattern (195 bp):
CACCGCCAACTCAAACTCCTCCACAAAGGCAATACCCGCCACCCACTCAAGCTCATTCACCACCA
ACACAATACTCGCCACCTACTCAAGGCCATCCGCCACCCATTCAAGTTCATCCTCCACCAAGGCA
ATACCCGCCACCCATTCAAGCTCATCCACCACCAAGGCAATACTCGCCACCCACTCAAAGACATC
Found at i:11894850 original size:60 final size:60
Alignment explanation
Indices: 11894736--11894863 Score: 132
Period size: 60 Copynumber: 2.1 Consensus size: 60
11894726 AAGGCAATAC
* * * *
11894736 CCGCCACCCACTCAAGCTCATTCACCACCAACACAATACTCGCCACCTACTCAAGGC-CAT
1 CCGCCACCCACTCAAGCTCATCCACCACCAACACAATACCCCCCACCCACTCAA-GCTCAT
* * * ** * *
11894796 CCGCCACCCATTCAAGTTCATCCTCCACCAAGGCAATCCCCCCCACCCATTCAAGCTCAT
1 CCGCCACCCACTCAAGCTCATCCACCACCAACACAATACCCCCCACCCACTCAAGCTCAT
*
11894856 CCACCACC
1 CCGCCACC
11894864 AAGGCAATAC
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
59 2 0.04
60 53 0.96
ACGTcount: A:0.27, C:0.49, G:0.08, T:0.16
Consensus pattern (60 bp):
CCGCCACCCACTCAAGCTCATCCACCACCAACACAATACCCCCCACCCACTCAAGCTCAT
Found at i:11894901 original size:21 final size:21
Alignment explanation
Indices: 11894877--11894933 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 21
11894867 GCAATACTCG
11894877 CCACCCACTCAAGCTCATTCA
1 CCACCCACTCAAGCTCATTCA
* * * *
11894898 CCACCAACACAA--T-ACTCG
1 CCACCCACTCAAGCTCATTCA
11894916 CCACCCACTCAAGCTCAT
1 CCACCCACTCAAGCTCAT
11894934 CCTCCACCAA
Statistics
Matches: 26, Mismatches: 7, Indels: 6
0.67 0.18 0.15
Matches are distributed among these distances:
18 13 0.50
19 1 0.04
20 1 0.04
21 11 0.42
ACGTcount: A:0.32, C:0.47, G:0.05, T:0.16
Consensus pattern (21 bp):
CCACCCACTCAAGCTCATTCA
Found at i:11894959 original size:99 final size:99
Alignment explanation
Indices: 11894856--11895451 Score: 368
Period size: 99 Copynumber: 6.1 Consensus size: 99
11894846 TCAAGCTCAT
* * * *
11894856 CCACCACCAAGGCAATACTCGCCACCCACTCAAGCTCATTCACCACCAACACAATACTCGCCACC
1 CCACCACCAAGGCAATACTCACCACCCACTCAAACTCATCCACCACCAACGCAATACTCGCCACC
*
11894921 CACTCAAGCTCATCCTCCACCAAGGCAATACCCA
66 CACTCAAGCTCATCCACCACCAAGGCAATACCCA
* * * ** * * *
11894955 CCACCCATTCAA-GCTCAT-C-CACCACCAAGGCAATACTC-GCCACCCACTCAAGGCCAT-C-C
1 CCA-CCA-CCAAGGC-AATACTCACCACCCACTCAA-ACTCATCCA-CCAC-CAACGCAATACTC
* * * *
11895014 ACCACCTACACT-AA-CTCACCCTCCACCAAGGCAATGCCCA
60 GCCACC--CACTCAAGCTCATCCACCACCAAGGCAATACCCA
* * * * *
11895054 CCACCCACTCAA-ACACAT-C-CACCACCAACTCAAA--C-TCCTCCACCAAGGCAATACCCGCC
1 CCA-CCAC-CAAGGCA-ATACTCACCACCCACTCAAACTCATCCACCACCAACGCAATACTCGCC
* *
11895113 ACCCACTCAAGCACATCCACCACCAAGGCTATACCCA
63 ACCCACTCAAGCTCATCCACCACCAAGGCAATACCCA
* * * * *
11895150 CCACCTATTCAA-GCTCAT-C-CACCACCCACTCAAACACATCCACCGCCAACGCAATACCCGCC
1 CCACC-A-CCAAGGC-AATACTCACCACCCACTCAAACTCATCCACCACCAACGCAATACTCGCC
* * * **
11895212 ACCCACACAAGCTCATCCGCCACCCACTCAA-ACCCA
63 ACCCACTCAAGCTCATCCACCACCAAGGCAATACCCA
* * * * *
11895248 TCCACCATCAAGGCAATACTCACCACCCATTCAAACACATCCACCACCAATGCAATACACGCCAC
1 -CCACCACCAAGGCAATACTCACCACCCACTCAAACTCATCCACCACCAACGCAATACTCGCCAC
* * ** ** * ** * *
11895313 CCACTAAAGGTTGTGAACCACCTACTCAA-GCTCA
65 CCACTCAAGCTCATCCACCACCAAGGCAATACCCA
* * * * * *
11895347 TCCTCCACCGAGGCAATACTCACCTCCAACTCAAACTCATCCACCACCAACCCAATACTCGCCGC
1 -CCACCACCAAGGCAATACTCACCACCCACTCAAACTCATCCACCACCAACGCAATACTCGCCAC
* * *
11895412 CCACTCAAAG-TCATCCACCACCAATGCAGTACTCA
65 CCACTC-AAGCTCATCCACCACCAAGGCAATACCCA
11895447 CCACC
1 CCACC
11895452 TACTCAAATT
Statistics
Matches: 390, Mismatches: 81, Indels: 52
0.75 0.15 0.10
Matches are distributed among these distances:
94 12 0.03
95 9 0.02
96 55 0.14
97 6 0.02
98 11 0.03
99 259 0.66
100 23 0.06
101 15 0.04
ACGTcount: A:0.32, C:0.47, G:0.08, T:0.13
Consensus pattern (99 bp):
CCACCACCAAGGCAATACTCACCACCCACTCAAACTCATCCACCACCAACGCAATACTCGCCACC
CACTCAAGCTCATCCACCACCAAGGCAATACCCA
Found at i:11895077 original size:21 final size:21
Alignment explanation
Indices: 11895051--11895295 Score: 88
Period size: 21 Copynumber: 12.4 Consensus size: 21
11895041 AAGGCAATGC
11895051 CCACCACCCACTCAAACACAT
1 CCACCACCCACTCAAACACAT
*
11895072 CCACCACCAACTC-AA-AC-T
1 CCACCACCCACTCAAACACAT
* * ** *
11895090 CCTCCACCAAGGC-AATAC--
1 CCACCACCCACTCAAACACAT
* *
11895108 CCGCCACCCACTCAAGCACAT
1 CCACCACCCACTCAAACACAT
* ** * *
11895129 CCACCACCAAGGC-TATAC--
1 CCACCACCCACTCAAACACAT
* * * *
11895147 CCACCACCTATTCAAGCTCAT
1 CCACCACCCACTCAAACACAT
11895168 CCACCACCCACTCAAACACAT
1 CCACCACCCACTCAAACACAT
* * * *
11895189 CCACCGCCAACGC-AATAC--
1 CCACCACCCACTCAAACACAT
* * * *
11895207 CCGCCACCCACACAAGCTCAT
1 CCACCACCCACTCAAACACAT
* *
11895228 CCGCCACCCACTCAAACCCAT
1 CCACCACCCACTCAAACACAT
* * ** *
11895249 CCACCATCAAGGC-AATAC-T
1 CCACCACCCACTCAAACACAT
*
11895268 -CACCACCCATTCAAACACAT
1 CCACCACCCACTCAAACACAT
11895288 CCACCACC
1 CCACCACC
11895296 AATGCAATAC
Statistics
Matches: 157, Mismatches: 54, Indels: 26
0.66 0.23 0.11
Matches are distributed among these distances:
18 49 0.31
19 15 0.10
20 12 0.08
21 81 0.52
ACGTcount: A:0.33, C:0.49, G:0.06, T:0.11
Consensus pattern (21 bp):
CCACCACCCACTCAAACACAT
Found at i:11895137 original size:60 final size:59
Alignment explanation
Indices: 11894976--11895137 Score: 217
Period size: 57 Copynumber: 2.8 Consensus size: 59
11894966 AGCTCATCCA
*
11894976 CCACCAAGGCAATACTCGCCACCCACTCAAGGC-CATCCACCACCTACACTAACTCACCCT
1 CCACCAAGGCAATACCCGCCACCCACTCAA-GCACATCCACCACC-ACACTAACTCACCCT
* * *
11895036 CCACCAAGGCAATGCCCACCACCCACTCAAACACATCCACCACCA-ACTCAA---ACTCCT
1 CCACCAAGGCAATACCCGCCACCCACTCAAGCACATCCACCACCACACT-AACTCAC-CCT
11895093 CCACCAAGGCAATACCCGCCACCCACTCAAGCACATCCACCACCA
1 CCACCAAGGCAATACCCGCCACCCACTCAAGCACATCCACCACCA
11895138 AGGCTATACC
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
56 2 0.02
57 45 0.49
58 3 0.03
59 4 0.04
60 38 0.41
ACGTcount: A:0.33, C:0.49, G:0.07, T:0.10
Consensus pattern (59 bp):
CCACCAAGGCAATACCCGCCACCCACTCAAGCACATCCACCACCACACTAACTCACCCT
Found at i:11895188 original size:60 final size:60
Alignment explanation
Indices: 11895051--11895295 Score: 255
Period size: 60 Copynumber: 4.1 Consensus size: 60
11895041 AAGGCAATGC
** * * ** *
11895051 CCACCACCCACTCAAACACATCCACCACCAACTCAA-ACTCCTCCACCAAGGCAA--T-AC
1 CCACCACCCACTCAAACACATCCACCACCAAGGCAATAC-CCACCACCCATTCAAGCTCAT
* * * *
11895108 CCGCCACCCACTCAAGCACATCCACCACCAAGGCTATACCCACCACCTATTCAAGCTCAT
1 CCACCACCCACTCAAACACATCCACCACCAAGGCAATACCCACCACCCATTCAAGCTCAT
* * * **
11895168 CCACCACCCACTCAAACACATCCACCGCCAACGCAATACCCGCCACCCACACAAGCTCAT
1 CCACCACCCACTCAAACACATCCACCACCAAGGCAATACCCACCACCCATTCAAGCTCAT
* * * * * *
11895228 CCGCCACCCACTCAAACCCATCCACCATCAAGGCAATACTCACCACCCATTCAAACACAT
1 CCACCACCCACTCAAACACATCCACCACCAAGGCAATACCCACCACCCATTCAAGCTCAT
11895288 CCACCACC
1 CCACCACC
11895296 AATGCAATAC
Statistics
Matches: 153, Mismatches: 31, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
57 42 0.27
58 2 0.01
59 1 0.01
60 108 0.71
ACGTcount: A:0.33, C:0.49, G:0.06, T:0.11
Consensus pattern (60 bp):
CCACCACCCACTCAAACACATCCACCACCAAGGCAATACCCACCACCCATTCAAGCTCAT
Found at i:11895459 original size:39 final size:39
Alignment explanation
Indices: 11895329--11895466 Score: 143
Period size: 39 Copynumber: 3.5 Consensus size: 39
11895319 AAGGTTGTGA
* * *
11895329 ACCACCTACTC-AAGCTCATCCTCCACCGAGGCAATACTC
1 ACCACCTACTCAAAG-TCATCCACCACCAACGCAATACTC
* * * *
11895368 ACCTCCAACTCAAACTCATCCACCACCAACCCAATACTC
1 ACCACCTACTCAAAGTCATCCACCACCAACGCAATACTC
* * * * *
11895407 GCCGCCCACTCAAAGTCATCCACCACCAATGCAGTACTC
1 ACCACCTACTCAAAGTCATCCACCACCAACGCAATACTC
*
11895446 ACCACCTACTCAAATTCATCC
1 ACCACCTACTCAAAGTCATCC
11895467 GCAGCCTCCT
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 78 0.98
40 2 0.03
ACGTcount: A:0.31, C:0.45, G:0.07, T:0.17
Consensus pattern (39 bp):
ACCACCTACTCAAAGTCATCCACCACCAACGCAATACTC
Found at i:11909657 original size:13 final size:13
Alignment explanation
Indices: 11909616--11909668 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
11909606 TTTAAACCAA
*
11909616 ACTTCTCAAATGC
1 ACTTCTCAAAAGC
* *
11909629 ACTTTTCCACAA-C
1 ACTTCT-CAAAAGC
11909642 ACTTCTCAAAAGC
1 ACTTCTCAAAAGC
*
11909655 ACTTTTCAAAAGC
1 ACTTCTCAAAAGC
11909668 A
1 A
11909669 TTGCCAAACT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
12 4 0.12
13 25 0.78
14 3 0.09
ACGTcount: A:0.36, C:0.30, G:0.06, T:0.28
Consensus pattern (13 bp):
ACTTCTCAAAAGC
Found at i:11920679 original size:21 final size:21
Alignment explanation
Indices: 11920655--11920695 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11920645 TTTTTTTCAC
* * *
11920655 GTTAGGTTTTTGGTTTTTAGG
1 GTTAGGGTTTGGGGTTTTAGG
11920676 GTTAGGGTTTGGGGTTTTAG
1 GTTAGGGTTTGGGGTTTTAG
11920696 AGAAAAAAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.00, G:0.39, T:0.51
Consensus pattern (21 bp):
GTTAGGGTTTGGGGTTTTAGG
Found at i:11921139 original size:125 final size:125
Alignment explanation
Indices: 11920775--11921212 Score: 743
Period size: 125 Copynumber: 3.5 Consensus size: 125
11920765 AAAATCAAAA
* *
11920775 CAGGATGCTTTATAAGAAGAATTTGTGAAATCGCGCCCTCGTGGATGCGCTTTTGCTACAGTAGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
** *
11920840 TCCTGGAAAAAATAATTTCGAGTTGATATTTCTGAGCAAATAGTATAAAAACGTTTCAAG
66 TCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAG
*
11920900 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCC-CGTGGACGTGCTTTTGCTACAGTAGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
* *
11920964 TCCTGGAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAAACACTTCAAG
66 TCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAG
*
11921024 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGTTTTTGCTACAGTAGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
*
11921089 TCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAATATAAAAACGCTTCAAG
66 TCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAG
* * * *
11921149 CAGGATGCTTTATGACAAGAACTTGTGAGATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
11921213 CATGTTTGTG
Statistics
Matches: 294, Mismatches: 18, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
124 117 0.40
125 177 0.60
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (125 bp):
CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGG
TCCTGGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAG
Found at i:11927932 original size:6 final size:6
Alignment explanation
Indices: 11927915--11927944 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
11927905 GTACCAGTCA
*
11927915 AGGGTT AAGGTT AGGGTT AGGGTT AGGGTT
1 AGGGTT AGGGTT AGGGTT AGGGTT AGGGTT
11927945 TTTAAGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.20, C:0.00, G:0.47, T:0.33
Consensus pattern (6 bp):
AGGGTT
Found at i:11927964 original size:22 final size:20
Alignment explanation
Indices: 11927930--11928009 Score: 106
Period size: 21 Copynumber: 3.8 Consensus size: 20
11927920 TAAGGTTAGG
*
11927930 GTTAGGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAA
11927950 GTTAAGTGTTTAGGGTTTTTAA
1 GTTAAG-G-TTAGGGTTTTTAA
11927972 GTTAAAGGTTAGGGTTTTTAA
1 GTT-AAGGTTAGGGTTTTTAA
*
11927993 GTTAAGGGTTAGAGTTT
1 GTTAA-GGTTAGGGTTT
11928010 AGGGTTTAGG
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
20 7 0.13
21 27 0.50
22 17 0.31
23 3 0.06
ACGTcount: A:0.24, C:0.00, G:0.31, T:0.45
Consensus pattern (20 bp):
GTTAAGGTTAGGGTTTTTAA
Found at i:11928077 original size:22 final size:22
Alignment explanation
Indices: 11928051--11928215 Score: 125
Period size: 22 Copynumber: 7.0 Consensus size: 22
11928041 GGTTTTTCAG
*
11928051 TTAAGTCAAGGGTTTAGGGTTT
1 TTAAGTTAAGGGTTTAGGGTTT
** *
11928073 TTAAGTTAAAAGTTTAAGGTTT
1 TTAAGTTAAGGGTTTAGGGTTT
11928095 TTAAGTTAAGGGTTAGGGTTTAGGGTTT
1 TTAAGTT-A-----AGGGTTTAGGGTTT
** *
11928123 TTAAGTTAAAAGTTTAAGGTTT
1 TTAAGTTAAGGGTTTAGGGTTT
11928145 TTAAGTTAAGGGTTAGGGTTTAGGGTTT
1 TTAAGTT-A-----AGGGTTTAGGGTTT
** *
11928173 TTAAGTTAAAAGTTTAAGGTTT
1 TTAAGTTAAGGGTTTAGGGTTT
11928195 TTAAGTTAAGGG-TTAGGGTTT
1 TTAAGTTAAGGGTTTAGGGTTT
11928216 AGAGTTTATG
Statistics
Matches: 112, Mismatches: 19, Indels: 25
0.72 0.12 0.16
Matches are distributed among these distances:
21 8 0.07
22 64 0.57
23 2 0.02
27 2 0.02
28 36 0.32
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.44
Consensus pattern (22 bp):
TTAAGTTAAGGGTTTAGGGTTT
Found at i:11928190 original size:100 final size:102
Alignment explanation
Indices: 11927946--11928222 Score: 339
Period size: 100 Copynumber: 2.7 Consensus size: 102
11927936 GTTAGGGTTT
* * * * *
11927946 TTAAGTTAAGTGTTTAGGGTTTTTAAGTT-AAAGGTTAGGGTTTTTAAGTTAAGGGTTAGAGTTT
1 TTAAGTCAAGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTT
**** *
11928010 AGGGTTTAGGGCTAAGAGTTTTGGGTTGAGAGGTTTTTCAG
66 AGGGTTT---G-TAAGAGTTAAAAGTTGAGAGGTTTTTAAG
11928051 TTAAGTCAAGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTT
1 TTAAGTCAAGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTT
* *
11928116 AGGGTTT-TTA-AGTTAAAAGTTTA-AGGTTTTTAAG
66 AGGGTTTGTAAGAGTTAAAAGTTGAGAGGTTTTTAAG
*
11928150 TTAAGGGT-TAGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTTAGGGT
1 TTAA--GTCAAGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTTAGGGT
*
11928214 TTAGAGTTT
64 TTAGGGTTT
11928223 ATGGTTTTTA
Statistics
Matches: 155, Mismatches: 14, Indels: 11
0.86 0.08 0.06
Matches are distributed among these distances:
99 14 0.09
100 71 0.46
101 4 0.03
105 27 0.17
106 39 0.25
ACGTcount: A:0.26, C:0.01, G:0.30, T:0.43
Consensus pattern (102 bp):
TTAAGTCAAGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTTAGGGTTT
AGGGTTTGTAAGAGTTAAAAGTTGAGAGGTTTTTAAG
Found at i:11928267 original size:22 final size:21
Alignment explanation
Indices: 11928219--11928268 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 21
11928209 AGGGTTTAGA
11928219 GTTTATGGTTTTTAAGTTAAGG
1 GTTTA-GGTTTTTAAGTTAAGG
11928241 G-TTAGGATTTTTAAGTTAAGG
1 GTTTAGG-TTTTTAAGTTAAGG
11928262 GTTTAGG
1 GTTTAGG
11928269 GTTTGTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 2 0.08
21 18 0.69
22 6 0.23
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (21 bp):
GTTTAGGTTTTTAAGTTAAGG
Found at i:11928267 original size:50 final size:50
Alignment explanation
Indices: 11928059--11928222 Score: 319
Period size: 50 Copynumber: 3.3 Consensus size: 50
11928049 AGTTAAGTCA
11928059 AGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTT
1 AGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTT
11928109 AGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTT
1 AGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTT
11928159 AGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTT
1 AGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTT
*
11928209 AGGGTTTAGAGTTT
1 AGGGTTTAGGGTTT
11928223 ATGGTTTTTA
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
50 113 1.00
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (50 bp):
AGGGTTTAGGGTTTTTAAGTTAAAAGTTTAAGGTTTTTAAGTTAAGGGTT
Done.